Merge pull request #3149 from github/update-v3.30.4-e4b85ab65

Merge main into releases/v3

.eslintignore

@@ -1,4 +0,0 @@
-**/webpack.config.js
-lib/**
-src/testdata/**
-tests/**

.eslintrc.json

@@ -1,77 +0,0 @@
-
-{
-    "parser": "@typescript-eslint/parser",
-    "parserOptions": {
-        "project": "./tsconfig.json"
-    },
-    "plugins": ["@typescript-eslint", "filenames", "github", "import", "no-async-foreach"],
-    "extends": [
-        "eslint:recommended",
-        "plugin:@typescript-eslint/recommended",
-        "plugin:@typescript-eslint/recommended-requiring-type-checking",
-        "plugin:github/recommended",
-        "plugin:github/typescript",
-        "plugin:import/typescript"
-    ],
-    "rules": {
-        "filenames/match-regex": ["error", "^[a-z0-9-]+(\\.test)?$"],
-        "i18n-text/no-en": "off",
-        "import/extensions": ["error", {
-            // Allow importing JSON files
-            "json": {}
-        }],
-        "import/no-amd": "error",
-        "import/no-commonjs": "error",
-        "import/no-cycle": "error",
-        "import/no-dynamic-require": "error",
-        // Disable the rule that checks that devDependencies aren't imported since we use a single
-        // linting configuration file for both source and test code.
-        "import/no-extraneous-dependencies": ["error", {"devDependencies": true}],
-        "import/no-namespace": "off",
-        "import/no-unresolved": "error",
-        "import/no-webpack-loader-syntax": "error",
-        "import/order": ["error", {
-            "alphabetize": {"order": "asc"},
-            "newlines-between": "always"
-        }],
-        "max-len": ["error", {
-            "code": 120,
-            "ignoreUrls": true,
-            "ignoreStrings": true,
-            "ignoreTemplateLiterals": true
-        }],
-        "no-async-foreach/no-async-foreach": "error",
-        "no-console": "off",
-        "no-sequences": "error",
-        "no-shadow": "off",
-        "@typescript-eslint/no-shadow": ["error"],
-        "one-var": ["error", "never"]
-    },
-    "overrides": [{
-        // "temporarily downgraded during transition to eslint
-        "files": "**",
-        "rules": {
-            "@typescript-eslint/ban-types": "off",
-            "@typescript-eslint/explicit-module-boundary-types": "off",
-            "@typescript-eslint/no-explicit-any": "off",
-            "@typescript-eslint/no-unsafe-assignment": "off",
-            "@typescript-eslint/no-unsafe-call": "off",
-            "@typescript-eslint/no-unsafe-member-access": "off",
-            "@typescript-eslint/no-unsafe-return": "off",
-            "@typescript-eslint/no-var-requires": "off",
-            "@typescript-eslint/prefer-regexp-exec": "off",
-            "@typescript-eslint/require-await": "off",
-            "@typescript-eslint/restrict-template-expressions": "off",
-            "func-style": "off",
-            "sort-imports": "off"
-        }
-    }],
-    "settings": {
-        "import/resolver": {
-            "node": {
-                "moduleDirectory": ["node_modules", "src"]
-            },
-            "typescript": {}
-        }
-    }
-}

.github/actions/check-codescanning-config/action.yml

@@ -29,7 +29,16 @@ inputs:
   tools:
     required: true
     description: |
-      The url of codeql to use.
+      The version of CodeQL passed to the `tools` input of the init action.
+      This can be any of the following:
+
+      - A local path to a tarball containing the CodeQL tools, or
+      - A URL to a GitHub release assets containing the CodeQL tools, or
+      - A special value `linked` which is forcing the use of the CodeQL tools
+        that the action has been bundled with.
+
+      If not specified, the Action will check in several places until it finds
+      the CodeQL tools.
 
 runs:
   using: composite
@@ -52,11 +61,12 @@ runs:
     - name: Check config
       working-directory: ${{ github.action_path }}
       shell: bash
-      run: ts-node ./index.ts "${{ runner.temp }}/user-config.yaml" '${{ inputs.expected-config-file-contents }}'
-
+      env:
+        EXPECTED_CONFIG_FILE_CONTENTS: '${{ inputs.expected-config-file-contents }}'
+      run: ts-node ./index.ts "$RUNNER_TEMP/user-config.yaml" "$EXPECTED_CONFIG_FILE_CONTENTS"
     - name: Clean up
       shell: bash
       if: always()
       run: |
-        rm -rf ${{ runner.temp }}/codescanning-config-cli-test
-        rm -rf ${{ runner.temp }}/user-config.yaml
+        rm -rf $RUNNER_TEMP/codescanning-config-cli-test
+        rm -rf $RUNNER_TEMP/user-config.yaml

.github/actions/check-codescanning-config/index.ts

@@ -6,9 +6,19 @@ import * as assert from 'assert'
 
 const actualConfig = loadActualConfig()
 
+function sortConfigArrays(config) {
+  for (const key of Object.keys(config)) {
+    const value = config[key];
+    if (key === 'queries' && Array.isArray(value)) {
+      config[key] = value.sort();
+    }
+  }
+  return config;
+}
+
 const rawExpectedConfig = process.argv[3].trim()
 if (!rawExpectedConfig) {
-  core.info('No expected configuration provided')
+  core.setFailed('No expected configuration provided')
 } else {
   core.startGroup('Expected generated user config')
   core.info(yaml.dump(JSON.parse(rawExpectedConfig)))
@@ -18,8 +28,8 @@ if (!rawExpectedConfig) {
 const expectedConfig = rawExpectedConfig ? JSON.parse(rawExpectedConfig) : undefined;
 
 assert.deepStrictEqual(
-  actualConfig,
-  expectedConfig,
+  sortConfigArrays(actualConfig),
+  sortConfigArrays(expectedConfig),
   'Expected configuration does not match actual configuration'
 );
 

.github/actions/prepare-mergeback-branch/action.yml

@@ -0,0 +1,80 @@
+name: "Prepare mergeback branch"
+description: Prepares a mergeback branch and opens a PR for it
+inputs:
+  base:
+    description: "The name of the base branch"
+    required: true
+  head:
+    description: "The name of the head branch"
+    required: true
+  branch:
+    description: "The name of the branch to create."
+    required: true
+  version:
+    description: "The new version"
+    required: true
+  token:
+    description: "The token to use"
+    required: true
+  dry-run:
+    description: "Set to true to skip creating the PR. The branch will still be pushed."
+    default: "false"
+runs:
+  using: composite
+  steps:
+    - name: Create mergeback branch
+      shell: bash
+      env:
+        VERSION: "${{ inputs.version }}"
+        NEW_BRANCH: "${{ inputs.branch }}"
+      run: |
+        set -exu
+
+        # Ensure we are on the new branch
+        git checkout "${NEW_BRANCH}"
+
+        # Update the version number ready for the next release
+        npm version patch --no-git-tag-version
+
+        # Update the changelog, adding a new version heading directly above the most recent existing one
+        awk '!f && /##/{print "'"## [UNRELEASED]\n\nNo user facing changes.\n"'"; f=1}1' CHANGELOG.md > temp && mv temp CHANGELOG.md
+        git add .
+        git commit -m "Update changelog and version after ${VERSION}"
+
+        git push origin "${NEW_BRANCH}"
+
+    - name: Create PR
+      shell: bash
+      if: inputs.dry-run != 'true'
+      env:
+        VERSION: "${{ inputs.version }}"
+        BASE_BRANCH: "${{ inputs.base }}"
+        HEAD_BRANCH: "${{ inputs.head }}"
+        NEW_BRANCH: "${{ inputs.branch }}"
+        GITHUB_TOKEN: "${{ inputs.token }}"
+      run: |
+        set -exu
+        pr_title="Mergeback ${VERSION} ${HEAD_BRANCH} into ${BASE_BRANCH}"
+        pr_body=$(cat << EOF
+          This PR bumps the version number and updates the changelog after the ${VERSION} release.
+
+          Please do the following:
+
+          - [ ] Remove and re-add the "Rebuild" label to the PR to trigger just this workflow.
+          - [ ] Wait for the "Rebuild" workflow to push a commit updating the distribution files.
+          - [ ] Mark the PR as ready for review to trigger the full set of PR checks.
+          - [ ] Approve and merge the PR. When merging the PR, make sure "Create a merge commit" is
+                selected rather than "Squash and merge" or "Rebase and merge".
+        EOF
+        )
+
+        # PR checks won't be triggered on PRs created by Actions. Therefore mark the PR as draft
+        # so that a maintainer can take the PR out of draft, thereby triggering the PR checks.
+        gh pr create \
+          --head "${NEW_BRANCH}" \
+          --base "${BASE_BRANCH}" \
+          --title "${pr_title}" \
+          --label "Rebuild" \
+          --body "${pr_body}" \
+          --assignee "${GITHUB_ACTOR}" \
+          --draft

.github/actions/prepare-test/action.yml

@@ -2,12 +2,16 @@ name: "Prepare test"
 description: Performs some preparation to run tests
 inputs:
   version:
-    description: "The version of the CodeQL CLI to use. Can be 'latest', 'default', 'nightly-latest', 'nightly-YYYY-MM-DD', or 'stable-YYYY-MM-DD'."
+    description: "The version of the CodeQL CLI to use. Can be 'linked', 'default', 'nightly', 'nightly-latest', 'nightly-YYYYMMDD', or 'stable-vX.Y.Z"
     required: true
   use-all-platform-bundle:
     description: "If true, we output a tools URL with codeql-bundle.tar.gz file rather than platform-specific URL"
     default: 'false'
     required: false
+  setup-kotlin:
+    description: "If true, we setup kotlin"
+    default: 'true'
+    required: true
 outputs:
   tools-url:
     description: "The value that should be passed as the 'tools' input of the 'init' step."
@@ -25,10 +29,24 @@ runs:
     - id: get-url
       name: Determine URL
       shell: bash
+      env:
+        VERSION: ${{ inputs.version }}
+        USE_ALL_PLATFORM_BUNDLE: ${{ inputs.use-all-platform-bundle }}
       run: |
         set -e # Fail this Action if `gh release list` fails.
 
-        if [[ ${{ inputs.use-all-platform-bundle }} == "true" ]]; then
+        if [[ "$VERSION" == "nightly" || "$VERSION" == "nightly-latest" ]]; then
+          echo "tools-url=nightly" >> "$GITHUB_OUTPUT"
+          exit 0
+        elif [[ "$VERSION" == "linked" ]]; then
+          echo "tools-url=linked" >> "$GITHUB_OUTPUT"
+          exit 0
+        elif [[ "$VERSION" == "default" ]]; then
+          echo "tools-url=" >> "$GITHUB_OUTPUT"
+          exit 0
+        fi
+
+        if [[ "$USE_ALL_PLATFORM_BUNDLE" == "true" ]]; then
           artifact_name="codeql-bundle.tar.gz"
         elif [[ "$RUNNER_OS" == "Linux" ]]; then
           artifact_name="codeql-bundle-linux64.tar.gz"
@@ -41,20 +59,18 @@ runs:
           exit 1
         fi
 
-        if [[ ${{ inputs.version }} == "nightly-latest" ]]; then
-          tag=`gh release list --repo dsp-testing/codeql-cli-nightlies -L 1 | cut -f 3`
-          echo "tools-url=https://github.com/dsp-testing/codeql-cli-nightlies/releases/download/$tag/$artifact_name" >> $GITHUB_OUTPUT
-        elif [[ ${{ inputs.version }} == *"nightly"* ]]; then
-          version=`echo ${{ inputs.version }} | sed -e 's/^.*\-//'`
-          echo "tools-url=https://github.com/dsp-testing/codeql-cli-nightlies/releases/download/codeql-bundle-$version-manual/$artifact_name" >> $GITHUB_OUTPUT
-        elif [[ ${{ inputs.version }} == *"stable"* ]]; then
-          version=`echo ${{ inputs.version }} | sed -e 's/^.*\-//'`
+        if [[ "$VERSION" == *"nightly"* ]]; then
+          version=`echo "$VERSION" | sed -e 's/^.*\-//'`
+          echo "tools-url=https://github.com/dsp-testing/codeql-cli-nightlies/releases/download/codeql-bundle-$version/$artifact_name" >> $GITHUB_OUTPUT
+        elif [[ "$VERSION" == *"stable"* ]]; then
+          version=`echo "$VERSION" | sed -e 's/^.*\-//'`
           echo "tools-url=https://github.com/github/codeql-action/releases/download/codeql-bundle-$version/$artifact_name" >> $GITHUB_OUTPUT
-        elif [[ ${{ inputs.version }} == "latest" ]]; then
-          echo "tools-url=latest" >> $GITHUB_OUTPUT
-        elif [[ ${{ inputs.version }} == "default" ]]; then
-          echo "tools-url=" >> $GITHUB_OUTPUT
         else
           echo "::error::Unrecognized version specified!"
           exit 1
         fi
+
+    - uses: fwilhe2/setup-kotlin@9c245a6425255f5e98ba1ce6c15d31fce7eca9da
+      if: ${{ inputs.setup-kotlin == 'true' }}
+      with:
+        version: 1.8.21

.github/actions/query-filter-test/action.yml

@@ -23,7 +23,16 @@ inputs:
   tools:
     required: true
     description: |
-      The url of codeql to use.
+      The version of CodeQL passed to the `tools` input of the init action.
+      This can be any of the following:
+
+      - A local path to a tarball containing the CodeQL tools, or
+      - A URL to a GitHub release assets containing the CodeQL tools, or
+      - A special value `linked` which is forcing the use of the CodeQL tools
+        that the action has been bundled with.
+
+      If not specified, the Action will check in several places until it finds
+      the CodeQL tools.
 
 runs:
   using: composite
@@ -39,7 +48,6 @@ runs:
     - uses: ./../action/analyze
       with:
         output: ${{ runner.temp }}/results
-        upload-database: false
         upload: never
       env:
         CODEQL_ACTION_TEST_MODE: "true"

.github/actions/release-branches/action.yml

@@ -18,8 +18,11 @@ runs:
   using: "composite"
   steps:
     - id: branches
+      env:
+        MAJOR_VERSION: ${{ inputs.major_version }}
+        LATEST_TAG: ${{ inputs.latest_tag }}
       run: |
         python ${{ github.action_path }}/release-branches.py \
-            --major-version ${{ inputs.major_version }} \
-            --latest-tag ${{ inputs.latest_tag }}
+            --major-version "$MAJOR_VERSION" \
+            --latest-tag "$LATEST_TAG"
       shell: bash

.github/actions/release-initialise/action.yml

@@ -18,12 +18,12 @@ runs:
     - name: Set up Python
       uses: actions/setup-python@v5
       with:
-        python-version: 3.8
+        python-version: 3.12
 
     - name: Install dependencies
       run: |
         python -m pip install --upgrade pip
-        pip install PyGithub==1.55 requests
+        pip install PyGithub==2.3.0 requests
       shell: bash
 
     - name: Update git config

.github/actions/setup-swift/action.yml

@@ -1,39 +0,0 @@
-name: "Set up Swift on Linux"
-description: Sets up an appropriate Swift version on Linux.
-inputs:
-  codeql-path:
-    description: Path to the CodeQL CLI executable.
-    required: true
-runs:
-  using: "composite"
-  steps:
-    - name: Get Swift version
-      id: get_swift_version
-      if: runner.os == 'Linux'
-      shell: bash
-      env: 
-        CODEQL_PATH: ${{ inputs.codeql-path }}
-      run: |
-        SWIFT_EXTRACTOR_DIR="$("$CODEQL_PATH" resolve languages --format json | jq -r '.swift[0]')"
-        if [ $SWIFT_EXTRACTOR_DIR = "null" ]; then
-          VERSION="null"
-        else
-          VERSION="$("$SWIFT_EXTRACTOR_DIR/tools/linux64/extractor" --version | awk '/version/ { print $3 }')"
-          # Specify 5.x.0, otherwise setup Action will default to latest minor version. 
-          if [ $VERSION = "5.7" ]; then
-            VERSION="5.7.0"
-          elif [ $VERSION = "5.8" ]; then
-            VERSION="5.8.0"
-          elif [ $VERSION = "5.9" ]; then
-            VERSION="5.9.0"
-          # setup-swift does not yet support v5.9.1 Remove this when it does.
-          elif [ $VERSION = "5.9.1" ]; then
-            VERSION="5.9.0"
-          fi 
-        fi
-        echo "version=$VERSION" | tee -a $GITHUB_OUTPUT
-
-    - uses: swift-actions/setup-swift@e1dca7c4a36344146bbc2803f0d538462477bb37 # Please update the corresponding SHA in the CLI's CodeQL Action Integration Test.
-      if: runner.os == 'Linux' && steps.get_swift_version.outputs.version != 'null'
-      with:
-        swift-version: "${{ steps.get_swift_version.outputs.version }}"

.github/codeql/codeql-config-javascript.yml

@@ -0,0 +1,15 @@
+name: "CodeQL config"
+queries: 
+  - name: Run custom queries
+    uses: ./queries
+  # Run all extra query suites, both because we want to
+  # and because it'll act as extra testing. This is why
+  # we include both even though one is a superset of the
+  # other, because we're testing the parsing logic and
+  # that the suites exist in the codeql bundle.
+  - uses: security-and-quality
+  - uses: security-experimental
+  - uses: security-extended
+paths-ignore:
+  - lib
+  - tests

.github/codeql/codeql-config.yml

@@ -1,15 +0,0 @@
-name: "CodeQL config"
-queries: 
-  - name: Run custom queries
-    uses: ./queries
-  # Run all extra query suites, both because we want to
-  # and because it'll act as extra testing. This is why
-  # we include both even though one is a superset of the
-  # other, because we're testing the parsing logic and
-  # that the suites exist in the codeql bundle.
-  - uses: security-experimental
-  - uses: security-extended
-  - uses: security-and-quality
-paths-ignore:
-  - tests
-  - lib

.github/copilot-instructions.md

@@ -0,0 +1,21 @@
+# CodeQL Action - Copilot Instructions
+
+## Generated code
+
+The CodeQL Action is written in TypeScript and compiled to JavaScript. Both the TypeScript sources and the **generated** JavaScript code are contained in this repository. The TypeScript sources are contained in the `src` directory and the JavaScript code is contained in the `lib` directory. A GitHub Actions workflow checks that the JavaScript code in `lib` is up-to-date. Therefore, you should not review any changes to the contents of the `lib` folder and it is expected that the JavaScript code in `lib` closely mirrors the TypeScript code it is generated from.
+
+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.
+
+## Release process
+
+- A release-PR is a PR which matches all of the following patterns:
+  - PR title starts with the exact prefix: `Merge main into releases/v`
+    - Equivalent regex: `^Merge main into releases\/v`
+  - AND head (source) branch matches the update-branch pattern:
+    - Regex: `^update-v[0-9]+(?:\.[0-9]+)*(?:-[a-f0-9]+)?` (e.g. `update-v3.29.9-cc722e476`)
+  - AND base (target) branch matches a release branch:
+    - Regex: `^releases\/v` (e.g. `releases/v3`)
+
+- Consider all files in release-PRs to have already been reviewed and do not review them, except for the following two files:
+    - `CHANGELOG.md`
+    - `package.json`

.github/dependabot.yml

@@ -2,41 +2,32 @@ version: 2
 updates:
   - package-ecosystem: npm
     directory: "/"
-    reviewers:
-      - "github/codeql-production-shield"
     schedule:
       interval: weekly
     labels:
-      - Update dependencies
+      - Rebuild
     # Ignore incompatible dependency updates
     ignore:
       # There is a type incompatibility issue between v0.0.9 and our other dependencies.
       - dependency-name: "@octokit/plugin-retry"
         versions: ["~6.0.0"]
-      # v7 requires ESM
-      - dependency-name: "del"
-        versions: ["^7.0.0"]
+      # This is broken due to the way configuration files have changed. 
+      # This might be fixed when we move to eslint v9.
+      - dependency-name: "eslint-plugin-import"
+        versions: [">=2.30.0"]
     groups:
       npm:
         patterns:
           - "*"
   - package-ecosystem: github-actions
-    directory: "/"
-    reviewers:
-      - "github/codeql-production-shield"
+    directories:
+      - "/.github/workflows"
+      - "/.github/actions"
     schedule:
       interval: weekly
+    labels:
+      - Rebuild
     groups:
       actions:
         patterns:
           - "*"
-  - package-ecosystem: github-actions
-    directory: "/.github/actions/setup-swift/" # All subdirectories outside of "/.github/workflows" must be explicitly included.
-    reviewers:
-      - "github/codeql-production-shield"
-    schedule:
-      interval: weekly
-    groups:
-      actions-setup-swift:
-        patterns:
-          - "*"

.github/pull_request_template.md

@@ -1,5 +1,14 @@
+<!-- For GitHub staff: Remember that this is a public repository. -->
+
+### Risk assessment
+
+For internal use only. Please select the risk level of this change:
+
+- **Low risk:** Changes are fully under feature flags, or have been fully tested and validated in pre-production environments and are highly observable, or are documentation or test only.
+- **High risk:** Changes are not fully under feature flags, have limited visibility and/or cannot be tested outside of production.
+
 ### Merge / deployment checklist
 
-- [ ] Confirm this change is backwards compatible with existing workflows.
-- [ ] Confirm the [readme](https://github.com/github/codeql-action/blob/main/README.md) has been updated if necessary.
-- [ ] Confirm the [changelog](https://github.com/github/codeql-action/blob/main/CHANGELOG.md) has been updated if necessary.
+- Confirm this change is backwards compatible with existing workflows.
+- Consider adding a [changelog](https://github.com/github/codeql-action/blob/main/CHANGELOG.md) entry for this change.
+- Confirm the [readme](https://github.com/github/codeql-action/blob/main/README.md) and docs have been updated if necessary.

.github/releases.ini

@@ -1 +1 @@
-OLDEST_SUPPORTED_MAJOR_VERSION=2
+OLDEST_SUPPORTED_MAJOR_VERSION=3

.github/update-release-branch.py

@@ -1,5 +1,6 @@
 import argparse
 import datetime
+import fileinput
 import re
 from github import Github
 import json
@@ -96,8 +97,8 @@ def open_pr(
   body.append(' - [ ] Ensure the docs team is aware of any documentation changes that need to be released.')
 
   if not is_primary_release:
-    body.append(' - [ ] Remove and re-add the "Update dependencies" label to the PR to trigger just this workflow.')
-    body.append(' - [ ] Wait for the "Update dependencies" workflow to push a commit updating the dependencies.')
+    body.append(' - [ ] Remove and re-add the "Rebuild" label to the PR to trigger just this workflow.')
+    body.append(' - [ ] Wait for the "Rebuild" workflow to push a commit updating the distribution files.')
 
   body.append(' - [ ] Mark the PR as ready for review to trigger the full set of PR checks.')
   body.append(' - [ ] Approve and merge this PR. Make sure `Create a merge commit` is selected rather than `Squash and merge` or `Rebase and merge`.')
@@ -107,7 +108,7 @@ def open_pr(
     body.append(' - [ ] Merge all backport PRs to older release branches, that will automatically be created once this PR is merged.')
 
   title = f'Merge {source_branch} into {target_branch}'
-  labels = ['Update dependencies'] if not is_primary_release else []
+  labels = ['Rebuild'] if not is_primary_release else []
 
   # Create the pull request
   # PR checks won't be triggered on PRs created by Actions. Therefore mark the PR as draft so that
@@ -171,6 +172,19 @@ def get_current_version():
   with open('package.json', 'r') as f:
     return json.load(f)['version']
 
+# `npm version` doesn't always work because of merge conflicts, so we
+# replace the version in package.json textually.
+def replace_version_package_json(prev_version, new_version):
+  prev_line_is_codeql = False
+  for line in fileinput.input('package.json', inplace = True, encoding='utf-8'):
+    if prev_line_is_codeql and f'\"version\": \"{prev_version}\"' in line:
+      print(line.replace(prev_version, new_version), end='')
+    else:
+      prev_line_is_codeql = False
+      print(line, end='') 
+    if '\"name\": \"codeql\",' in line:
+        prev_line_is_codeql = True 
+
 def get_today_string():
   today = datetime.datetime.today()
   return '{:%d %b %Y}'.format(today)
@@ -186,16 +200,17 @@ def process_changelog_for_backports(source_branch_major_version, target_branch_m
   with open('CHANGELOG.md', 'r') as f:
 
     # until we find the first section, just duplicate all lines
-    while True:
+    found_first_section = False
+    while not found_first_section:
       line = f.readline()
       if not line:
         raise Exception('Could not find any change sections in CHANGELOG.md') # EOF
 
-      output += line
       if line.startswith('## '):
         line = line.replace(f'## {source_branch_major_version}', f'## {target_branch_major_version}')
-        # we have found the first section, so now handle things differently
-        break
+        found_first_section = True
+
+      output += line
 
     # found_content tracks whether we hit two headings in a row
     found_content = False
@@ -373,9 +388,9 @@ def main():
       run_git('commit', '--no-edit')
 
     # Migrate the package version number from a vLatest version number to a vOlder version number
-    print(f'Setting version number to {version}')
-    subprocess.check_output(['npm', 'version', version, '--no-git-tag-version'])
-    run_git('add', 'package.json', 'package-lock.json')
+    print(f'Setting version number to {version} in package.json')
+    replace_version_package_json(get_current_version(), version) # We rely on the `Rebuild` workflow to update package-lock.json
+    run_git('add', 'package.json')
 
     # Migrate the changelog notes from vLatest version numbers to vOlder version numbers
     print(f'Migrating changelog notes from v{source_branch_major_version} to v{target_branch_major_version}')

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

@@ -1,77 +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:
-#     (cd pr-checks; pip install ruamel.yaml@0.17.31 && python3 sync.py)
+#     pr-checks/sync.sh
 # to regenerate this file.
 
 name: PR Check - All-platform bundle
 env:
   GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }}
   GO111MODULE: auto
-  CODEQL_EXTRACTOR_JAVA_AGENT_DISABLE_KOTLIN: 'true'
 on:
   push:
     branches:
-    - main
-    - releases/v*
+      - main
+      - releases/v*
   pull_request:
     types:
-    - opened
-    - synchronize
-    - reopened
-    - ready_for_review
-  workflow_dispatch: {}
+      - opened
+      - synchronize
+      - reopened
+      - ready_for_review
+  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' }}
+  group: ${{ github.workflow }}-${{ github.ref }}
 jobs:
   all-platform-bundle:
     strategy:
+      fail-fast: false
       matrix:
         include:
-        - os: ubuntu-latest
-          version: nightly-latest
+          - os: ubuntu-latest
+            version: nightly-latest
     name: All-platform bundle
+    if: github.triggering_actor != 'dependabot[bot]'
     permissions:
       contents: read
-      security-events: write
+      security-events: read
     timeout-minutes: 45
     runs-on: ${{ matrix.os }}
     steps:
-    - name: Setup Python on MacOS
-      uses: actions/setup-python@v5
-      if: >-
-        matrix.os == 'macos-latest' && (
-
-        matrix.version == 'stable-20221211' ||
-
-        matrix.version == 'stable-20230418' ||
-
-        matrix.version == 'stable-v2.13.5' ||
-
-        matrix.version == 'stable-v2.14.6')
-      with:
-        python-version: '3.11'
-    - name: Check out repository
-      uses: actions/checkout@v4
-    - name: Prepare test
-      id: prepare-test
-      uses: ./.github/actions/prepare-test
-      with:
-        version: ${{ matrix.version }}
-        use-all-platform-bundle: 'true'
-    - name: Set environment variable for Swift enablement
-      if: runner.os != 'Windows' && matrix.version == '20221211'
-      shell: bash
-      run: echo "CODEQL_ENABLE_EXPERIMENTAL_FEATURES_SWIFT=true" >> $GITHUB_ENV
-    - id: init
-      uses: ./../action/init
-      with:
-        tools: ${{ steps.prepare-test.outputs.tools-url }}
-    - uses: ./../action/.github/actions/setup-swift
-      with:
-        codeql-path: ${{ steps.init.outputs.codeql-path }}
-    - name: Build code
-      shell: bash
-      run: ./build.sh
-    - uses: ./../action/analyze
-      with:
-        upload-database: false
+      - name: Check out repository
+        uses: actions/checkout@v5
+      - name: Prepare test
+        id: prepare-test
+        uses: ./.github/actions/prepare-test
+        with:
+          version: ${{ matrix.version }}
+          use-all-platform-bundle: 'true'
+          setup-kotlin: 'true'
+      - name: Install Go
+        uses: actions/setup-go@v6
+        with:
+          go-version: ${{ inputs.go-version || '>=1.21.0' }}
+          cache: false
+      - 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/__analyze-ref-input.yml

@@ -1,82 +1,90 @@
 # Warning: This file is generated automatically, and should not be modified.
 # Instead, please modify the template in the pr-checks directory and run:
-#     (cd pr-checks; pip install ruamel.yaml@0.17.31 && python3 sync.py)
+#     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
-  CODEQL_EXTRACTOR_JAVA_AGENT_DISABLE_KOTLIN: 'true'
 on:
   push:
     branches:
-    - main
-    - releases/v*
+      - main
+      - releases/v*
   pull_request:
     types:
-    - opened
-    - synchronize
-    - reopened
-    - ready_for_review
-  workflow_dispatch: {}
+      - opened
+      - synchronize
+      - reopened
+      - ready_for_review
+  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' }}
+  group: ${{ github.workflow }}-${{ github.ref }}
 jobs:
   analyze-ref-input:
     strategy:
+      fail-fast: false
       matrix:
         include:
-        - os: ubuntu-latest
-          version: default
-        - os: macos-latest
-          version: default
-        - os: windows-latest
-          version: default
+          - os: ubuntu-latest
+            version: default
+          - os: macos-latest
+            version: default
+          - os: windows-latest
+            version: default
     name: "Analyze: 'ref' and 'sha' from inputs"
+    if: github.triggering_actor != 'dependabot[bot]'
     permissions:
       contents: read
-      security-events: write
+      security-events: read
     timeout-minutes: 45
     runs-on: ${{ matrix.os }}
     steps:
-    - name: Setup Python on MacOS
-      uses: actions/setup-python@v5
-      if: >-
-        matrix.os == 'macos-latest' && (
-
-        matrix.version == 'stable-20221211' ||
-
-        matrix.version == 'stable-20230418' ||
-
-        matrix.version == 'stable-v2.13.5' ||
-
-        matrix.version == 'stable-v2.14.6')
-      with:
-        python-version: '3.11'
-    - name: Check out repository
-      uses: actions/checkout@v4
-    - name: Prepare test
-      id: prepare-test
-      uses: ./.github/actions/prepare-test
-      with:
-        version: ${{ matrix.version }}
-        use-all-platform-bundle: 'false'
-    - name: Set environment variable for Swift enablement
-      if: runner.os != 'Windows' && matrix.version == '20221211'
-      shell: bash
-      run: echo "CODEQL_ENABLE_EXPERIMENTAL_FEATURES_SWIFT=true" >> $GITHUB_ENV
-    - 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
-      shell: bash
-      run: ./build.sh
-    - uses: ./../action/analyze
-      with:
-        upload-database: false
-        ref: refs/heads/main
-        sha: 5e235361806c361d4d3f8859e3c897658025a9a2
+      - name: Check out repository
+        uses: actions/checkout@v5
+      - 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 Go
+        uses: actions/setup-go@v6
+        with:
+          go-version: ${{ inputs.go-version || '>=1.21.0' }}
+          cache: false
+      - 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

@@ -1,92 +1,84 @@
 # Warning: This file is generated automatically, and should not be modified.
 # Instead, please modify the template in the pr-checks directory and run:
-#     (cd pr-checks; pip install ruamel.yaml@0.17.31 && python3 sync.py)
+#     pr-checks/sync.sh
 # to regenerate this file.
 
 name: PR Check - autobuild-action
 env:
   GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }}
   GO111MODULE: auto
-  CODEQL_EXTRACTOR_JAVA_AGENT_DISABLE_KOTLIN: 'true'
 on:
   push:
     branches:
-    - main
-    - releases/v*
+      - main
+      - releases/v*
   pull_request:
     types:
-    - opened
-    - synchronize
-    - reopened
-    - ready_for_review
-  workflow_dispatch: {}
+      - opened
+      - synchronize
+      - reopened
+      - ready_for_review
+  schedule:
+    - cron: '0 5 * * *'
+  workflow_dispatch:
+    inputs: {}
+  workflow_call:
+    inputs: {}
+defaults:
+  run:
+    shell: bash
+concurrency:
+  cancel-in-progress: ${{ github.event_name == 'pull_request' }}
+  group: ${{ github.workflow }}-${{ github.ref }}
 jobs:
   autobuild-action:
     strategy:
+      fail-fast: false
       matrix:
         include:
-        - os: ubuntu-latest
-          version: latest
-        - os: macos-latest
-          version: latest
-        - os: windows-latest
-          version: latest
+          - 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: write
+      security-events: read
     timeout-minutes: 45
     runs-on: ${{ matrix.os }}
     steps:
-    - name: Setup Python on MacOS
-      uses: actions/setup-python@v5
-      if: >-
-        matrix.os == 'macos-latest' && (
-
-        matrix.version == 'stable-20221211' ||
-
-        matrix.version == 'stable-20230418' ||
-
-        matrix.version == 'stable-v2.13.5' ||
-
-        matrix.version == 'stable-v2.14.6')
-      with:
-        python-version: '3.11'
-    - name: Check out repository
-      uses: actions/checkout@v4
-    - name: Prepare test
-      id: prepare-test
-      uses: ./.github/actions/prepare-test
-      with:
-        version: ${{ matrix.version }}
-        use-all-platform-bundle: 'false'
-    - name: Set environment variable for Swift enablement
-      if: runner.os != 'Windows' && matrix.version == '20221211'
-      shell: bash
-      run: echo "CODEQL_ENABLE_EXPERIMENTAL_FEATURES_SWIFT=true" >> $GITHUB_ENV
-    - uses: ./../action/init
-      with:
-        languages: csharp
-        tools: ${{ steps.prepare-test.outputs.tools-url }}
-    - uses: ./../action/autobuild
-      env:
+      - name: Check out repository
+        uses: actions/checkout@v5
+      - 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: ${{ steps.prepare-test.outputs.tools-url }}
+      - uses: ./../action/autobuild
+        env:
       # Explicitly disable the CLR tracer.
-        COR_ENABLE_PROFILING: ''
-        COR_PROFILER: ''
-        COR_PROFILER_PATH_64: ''
-        CORECLR_ENABLE_PROFILING: ''
-        CORECLR_PROFILER: ''
-        CORECLR_PROFILER_PATH_64: ''
-    - uses: ./../action/analyze
-      with:
-        upload-database: false
-    - name: Check database
-      shell: bash
-      run: |
-        cd "$RUNNER_TEMP/codeql_databases"
-        if [[ ! -d csharp ]]; then
-          echo "Did not find a C# database"
-          exit 1
-        fi
+          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 +1,103 @@
+# 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 - Autobuild direct tracing (custom working directory)
+env:
+  GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }}
+  GO111MODULE: auto
+on:
+  push:
+    branches:
+      - main
+      - releases/v*
+  pull_request:
+    types:
+      - opened
+      - synchronize
+      - reopened
+      - ready_for_review
+  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' }}
+  group: ${{ github.workflow }}-${{ github.ref }}
+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@v5
+      - 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 Java
+        uses: actions/setup-java@v5
+        with:
+          java-version: ${{ inputs.java-version || '17' }}
+          distribution: temurin
+      - 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-direct-tracing.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 - Autobuild direct tracing
+env:
+  GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }}
+  GO111MODULE: auto
+on:
+  push:
+    branches:
+      - main
+      - releases/v*
+  pull_request:
+    types:
+      - opened
+      - synchronize
+      - reopened
+      - ready_for_review
+  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' }}
+  group: ${{ github.workflow }}-${{ github.ref }}
+jobs:
+  autobuild-direct-tracing:
+    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
+    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@v5
+      - 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 Java
+        uses: actions/setup-java@v5
+        with:
+          java-version: ${{ inputs.java-version || '17' }}
+          distribution: temurin
+      - 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: ${{ steps.prepare-test.outputs.tools-url }}
+
+      - name: Check that indirect tracing is disabled
+        run: |
+          if [[ ! -z "${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_AUTOBUILD_BUILD_MODE_DIRECT_TRACING: true
+      CODEQL_ACTION_TEST_MODE: true

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

@@ -1,88 +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:
-#     (cd pr-checks; pip install ruamel.yaml@0.17.31 && python3 sync.py)
+#     pr-checks/sync.sh
 # to regenerate this file.
 
 name: PR Check - Build mode autobuild
 env:
   GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }}
   GO111MODULE: auto
-  CODEQL_EXTRACTOR_JAVA_AGENT_DISABLE_KOTLIN: 'true'
 on:
   push:
     branches:
-    - main
-    - releases/v*
+      - main
+      - releases/v*
   pull_request:
     types:
-    - opened
-    - synchronize
-    - reopened
-    - ready_for_review
-  workflow_dispatch: {}
+      - opened
+      - synchronize
+      - reopened
+      - ready_for_review
+  schedule:
+    - cron: '0 5 * * *'
+  workflow_dispatch:
+    inputs: {}
+  workflow_call:
+    inputs: {}
+defaults:
+  run:
+    shell: bash
+concurrency:
+  cancel-in-progress: ${{ github.event_name == 'pull_request' }}
+  group: ${{ github.workflow }}-${{ github.ref }}
 jobs:
   build-mode-autobuild:
     strategy:
+      fail-fast: false
       matrix:
         include:
-        - os: ubuntu-latest
-          version: nightly-latest
+          - os: ubuntu-latest
+            version: nightly-latest
     name: Build mode autobuild
+    if: github.triggering_actor != 'dependabot[bot]'
     permissions:
       contents: read
-      security-events: write
+      security-events: read
     timeout-minutes: 45
     runs-on: ${{ matrix.os }}
     steps:
-    - name: Setup Python on MacOS
-      uses: actions/setup-python@v5
-      if: >-
-        matrix.os == 'macos-latest' && (
+      - name: Check out repository
+        uses: actions/checkout@v5
+      - 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/* .
 
-        matrix.version == 'stable-20221211' ||
+      - uses: ./../action/init
+        id: init
+        with:
+          build-mode: autobuild
+          db-location: ${{ runner.temp }}/customDbLocation
+          languages: java
+          tools: ${{ steps.prepare-test.outputs.tools-url }}
 
-        matrix.version == 'stable-20230418' ||
+      - 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
 
-        matrix.version == 'stable-v2.13.5' ||
-
-        matrix.version == 'stable-v2.14.6')
-      with:
-        python-version: '3.11'
-    - name: Check out repository
-      uses: actions/checkout@v4
-    - name: Prepare test
-      id: prepare-test
-      uses: ./.github/actions/prepare-test
-      with:
-        version: ${{ matrix.version }}
-        use-all-platform-bundle: 'false'
-    - name: Set environment variable for Swift enablement
-      if: runner.os != 'Windows' && matrix.version == '20221211'
-      shell: bash
-      run: echo "CODEQL_ENABLE_EXPERIMENTAL_FEATURES_SWIFT=true" >> $GITHUB_ENV
-    - 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
-
-    - uses: ./../action/analyze
+      - uses: ./../action/analyze
     env:
       CODEQL_ACTION_TEST_MODE: true

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

@@ -1,90 +1,95 @@
 # Warning: This file is generated automatically, and should not be modified.
 # Instead, please modify the template in the pr-checks directory and run:
-#     (cd pr-checks; pip install ruamel.yaml@0.17.31 && python3 sync.py)
+#     pr-checks/sync.sh
 # to regenerate this file.
 
 name: PR Check - Build mode manual
 env:
   GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }}
   GO111MODULE: auto
-  CODEQL_EXTRACTOR_JAVA_AGENT_DISABLE_KOTLIN: 'true'
 on:
   push:
     branches:
-    - main
-    - releases/v*
+      - main
+      - releases/v*
   pull_request:
     types:
-    - opened
-    - synchronize
-    - reopened
-    - ready_for_review
-  workflow_dispatch: {}
+      - opened
+      - synchronize
+      - reopened
+      - ready_for_review
+  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' }}
+  group: ${{ github.workflow }}-${{ github.ref }}
 jobs:
   build-mode-manual:
     strategy:
+      fail-fast: false
       matrix:
         include:
-        - os: ubuntu-latest
-          version: nightly-latest
+          - os: ubuntu-latest
+            version: nightly-latest
     name: Build mode manual
+    if: github.triggering_actor != 'dependabot[bot]'
     permissions:
       contents: read
-      security-events: write
+      security-events: read
     timeout-minutes: 45
     runs-on: ${{ matrix.os }}
     steps:
-    - name: Setup Python on MacOS
-      uses: actions/setup-python@v5
-      if: >-
-        matrix.os == 'macos-latest' && (
+      - name: Check out repository
+        uses: actions/checkout@v5
+      - 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 Go
+        uses: actions/setup-go@v6
+        with:
+          go-version: ${{ inputs.go-version || '>=1.21.0' }}
+          cache: false
+      - uses: ./../action/init
+        id: init
+        with:
+          build-mode: manual
+          db-location: ${{ runner.temp }}/customDbLocation
+          languages: java
+          tools: ${{ steps.prepare-test.outputs.tools-url }}
 
-        matrix.version == 'stable-20221211' ||
+      - 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
 
-        matrix.version == 'stable-20230418' ||
+      - name: Build code
+        run: ./build.sh
 
-        matrix.version == 'stable-v2.13.5' ||
-
-        matrix.version == 'stable-v2.14.6')
-      with:
-        python-version: '3.11'
-    - name: Check out repository
-      uses: actions/checkout@v4
-    - name: Prepare test
-      id: prepare-test
-      uses: ./.github/actions/prepare-test
-      with:
-        version: ${{ matrix.version }}
-        use-all-platform-bundle: 'false'
-    - name: Set environment variable for Swift enablement
-      if: runner.os != 'Windows' && matrix.version == '20221211'
-      shell: bash
-      run: echo "CODEQL_ENABLE_EXPERIMENTAL_FEATURES_SWIFT=true" >> $GITHUB_ENV
-    - 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
-
-    - uses: ./../action/.github/actions/setup-swift
-      with:
-        codeql-path: ${{ steps.init.outputs.codeql-path }}
-
-    - name: Build code
-      shell: bash
-      run: ./build.sh
-
-    - uses: ./../action/analyze
+      - uses: ./../action/analyze
     env:
       CODEQL_ACTION_TEST_MODE: true

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

@@ -1,88 +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:
-#     (cd pr-checks; pip install ruamel.yaml@0.17.31 && python3 sync.py)
+#     pr-checks/sync.sh
 # to regenerate this file.
 
 name: PR Check - Build mode none
 env:
   GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }}
   GO111MODULE: auto
-  CODEQL_EXTRACTOR_JAVA_AGENT_DISABLE_KOTLIN: 'true'
 on:
   push:
     branches:
-    - main
-    - releases/v*
+      - main
+      - releases/v*
   pull_request:
     types:
-    - opened
-    - synchronize
-    - reopened
-    - ready_for_review
-  workflow_dispatch: {}
+      - opened
+      - synchronize
+      - reopened
+      - ready_for_review
+  schedule:
+    - cron: '0 5 * * *'
+  workflow_dispatch:
+    inputs: {}
+  workflow_call:
+    inputs: {}
+defaults:
+  run:
+    shell: bash
+concurrency:
+  cancel-in-progress: ${{ github.event_name == 'pull_request' }}
+  group: ${{ github.workflow }}-${{ github.ref }}
 jobs:
   build-mode-none:
     strategy:
+      fail-fast: false
       matrix:
         include:
-        - os: ubuntu-latest
-          version: latest
-        - os: ubuntu-latest
-          version: nightly-latest
+          - 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: write
+      security-events: read
     timeout-minutes: 45
     runs-on: ${{ matrix.os }}
     steps:
-    - name: Setup Python on MacOS
-      uses: actions/setup-python@v5
-      if: >-
-        matrix.os == 'macos-latest' && (
+      - name: Check out repository
+        uses: actions/checkout@v5
+      - 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 }}
 
-        matrix.version == 'stable-20221211' ||
-
-        matrix.version == 'stable-20230418' ||
-
-        matrix.version == 'stable-v2.13.5' ||
-
-        matrix.version == 'stable-v2.14.6')
-      with:
-        python-version: '3.11'
-    - name: Check out repository
-      uses: actions/checkout@v4
-    - name: Prepare test
-      id: prepare-test
-      uses: ./.github/actions/prepare-test
-      with:
-        version: ${{ matrix.version }}
-        use-all-platform-bundle: 'false'
-    - name: Set environment variable for Swift enablement
-      if: runner.os != 'Windows' && matrix.version == '20221211'
-      shell: bash
-      run: echo "CODEQL_ENABLE_EXPERIMENTAL_FEATURES_SWIFT=true" >> $GITHUB_ENV
-    - 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 $build_mode"
-          exit 1
-        fi
+      - name: Validate database build mode
+        run: |
+          metadata_path="$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/autobuild
+        if: matrix.version != 'nightly-latest'
 
-    - uses: ./../action/analyze
+      - uses: ./../action/analyze
     env:
       CODEQL_ACTION_TEST_MODE: true

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

@@ -1,89 +1,84 @@
 # Warning: This file is generated automatically, and should not be modified.
 # Instead, please modify the template in the pr-checks directory and run:
-#     (cd pr-checks; pip install ruamel.yaml@0.17.31 && python3 sync.py)
+#     pr-checks/sync.sh
 # to regenerate this file.
 
 name: PR Check - Build mode rollback
 env:
   GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }}
   GO111MODULE: auto
-  CODEQL_EXTRACTOR_JAVA_AGENT_DISABLE_KOTLIN: 'true'
 on:
   push:
     branches:
-    - main
-    - releases/v*
+      - main
+      - releases/v*
   pull_request:
     types:
-    - opened
-    - synchronize
-    - reopened
-    - ready_for_review
-  workflow_dispatch: {}
+      - opened
+      - synchronize
+      - reopened
+      - ready_for_review
+  schedule:
+    - cron: '0 5 * * *'
+  workflow_dispatch:
+    inputs: {}
+  workflow_call:
+    inputs: {}
+defaults:
+  run:
+    shell: bash
+concurrency:
+  cancel-in-progress: ${{ github.event_name == 'pull_request' }}
+  group: ${{ github.workflow }}-${{ github.ref }}
 jobs:
   build-mode-rollback:
     strategy:
+      fail-fast: false
       matrix:
         include:
-        - os: ubuntu-latest
-          version: nightly-latest
+          - os: ubuntu-latest
+            version: nightly-latest
     name: Build mode rollback
+    if: github.triggering_actor != 'dependabot[bot]'
     permissions:
       contents: read
-      security-events: write
+      security-events: read
     timeout-minutes: 45
     runs-on: ${{ matrix.os }}
     steps:
-    - name: Setup Python on MacOS
-      uses: actions/setup-python@v5
-      if: >-
-        matrix.os == 'macos-latest' && (
+      - name: Check out repository
+        uses: actions/checkout@v5
+      - 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/* .
 
-        matrix.version == 'stable-20221211' ||
+      - uses: ./../action/init
+        id: init
+        with:
+          build-mode: none
+          db-location: ${{ runner.temp }}/customDbLocation
+          languages: java
+          tools: ${{ steps.prepare-test.outputs.tools-url }}
 
-        matrix.version == 'stable-20230418' ||
+      - 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
 
-        matrix.version == 'stable-v2.13.5' ||
-
-        matrix.version == 'stable-v2.14.6')
-      with:
-        python-version: '3.11'
-    - name: Check out repository
-      uses: actions/checkout@v4
-    - name: Prepare test
-      id: prepare-test
-      uses: ./.github/actions/prepare-test
-      with:
-        version: ${{ matrix.version }}
-        use-all-platform-bundle: 'false'
-    - name: Set environment variable for Swift enablement
-      if: runner.os != 'Windows' && matrix.version == '20221211'
-      shell: bash
-      run: echo "CODEQL_ENABLE_EXPERIMENTAL_FEATURES_SWIFT=true" >> $GITHUB_ENV
-    - 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
+      - uses: ./../action/analyze
     env:
       CODEQL_ACTION_DISABLE_JAVA_BUILDLESS: true
       CODEQL_ACTION_TEST_MODE: true

.github/workflows/__bundle-toolcache.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 - Bundle: Caching checks'
+env:
+  GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }}
+  GO111MODULE: auto
+on:
+  push:
+    branches:
+      - main
+      - releases/v*
+  pull_request:
+    types:
+      - opened
+      - synchronize
+      - reopened
+      - ready_for_review
+  schedule:
+    - cron: '0 5 * * *'
+  workflow_dispatch:
+    inputs: {}
+  workflow_call:
+    inputs: {}
+defaults:
+  run:
+    shell: bash
+concurrency:
+  cancel-in-progress: ${{ github.event_name == 'pull_request' }}
+  group: ${{ github.workflow }}-${{ github.ref }}
+jobs:
+  bundle-toolcache:
+    strategy:
+      fail-fast: false
+      matrix:
+        include:
+          - os: macos-latest
+            version: linked
+          - os: ubuntu-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@v5
+      - 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@v8
+        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
+      - name: Check toolcache does not contain CodeQL
+        uses: actions/github-script@v8
+        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:
+          languages: javascript
+          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@v8
+        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/__bundle-zstd.yml

@@ -0,0 +1,122 @@
+# 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: Zstandard checks'
+env:
+  GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }}
+  GO111MODULE: auto
+on:
+  push:
+    branches:
+      - main
+      - releases/v*
+  pull_request:
+    types:
+      - opened
+      - synchronize
+      - reopened
+      - ready_for_review
+  schedule:
+    - cron: '0 5 * * *'
+  workflow_dispatch:
+    inputs: {}
+  workflow_call:
+    inputs: {}
+defaults:
+  run:
+    shell: bash
+concurrency:
+  cancel-in-progress: ${{ github.event_name == 'pull_request' }}
+  group: ${{ github.workflow }}-${{ github.ref }}
+jobs:
+  bundle-zstd:
+    strategy:
+      fail-fast: false
+      matrix:
+        include:
+          - os: macos-latest
+            version: linked
+          - os: ubuntu-latest
+            version: linked
+          - os: windows-latest
+            version: linked
+    name: 'Bundle: Zstandard 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@v5
+      - 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@v8
+        with:
+          script: |
+            const fs = require('fs');
+            const path = require('path');
+            const codeqlPath = path.join(process.env['RUNNER_TOOL_CACHE'], 'CodeQL');
+            if (codeqlPath !== undefined) {
+              fs.rmdirSync(codeqlPath, { recursive: true });
+            }
+      - id: init
+        uses: ./../action/init
+        with:
+          languages: javascript
+          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@v4
+        with:
+          name: ${{ matrix.os }}-zstd-bundle.sarif
+          path: ${{ runner.temp }}/results/javascript.sarif
+          retention-days: 7
+      - name: Check diagnostic with expected tools URL appears in SARIF
+        uses: actions/github-script@v8
+        env:
+          SARIF_PATH: ${{ runner.temp }}/results/javascript.sarif
+        with:
+          script: |
+            const fs = require('fs');
+
+            const sarif = JSON.parse(fs.readFileSync(process.env['SARIF_PATH'], 'utf8'));
+            const run = sarif.runs[0];
+
+            const toolExecutionNotifications = run.invocations[0].toolExecutionNotifications;
+            const downloadTelemetryNotifications = toolExecutionNotifications.filter(n =>
+              n.descriptor.id === 'codeql-action/bundle-download-telemetry'
+            );
+            if (downloadTelemetryNotifications.length !== 1) {
+              core.setFailed(
+                'Expected exactly one reporting descriptor in the ' +
+                  `'runs[].invocations[].toolExecutionNotifications[]' SARIF property, but found ` +
+                  `${downloadTelemetryNotifications.length}. All notification reporting descriptors: ` +
+                  `${JSON.stringify(toolExecutionNotifications)}.`
+              );
+            }
+
+            const toolsUrl = downloadTelemetryNotifications[0].properties.attributes.toolsUrl;
+            console.log(`Found tools URL: ${toolsUrl}`);
+
+            const expectedExtension = process.env['RUNNER_OS'] === 'Windows' ? '.tar.gz' : '.tar.zst';
+
+            if (!toolsUrl.endsWith(expectedExtension)) {
+              core.setFailed(
+                `Expected the tools URL to be a ${expectedExtension} file, but found ${toolsUrl}.`
+              );
+            }
+    env:
+      CODEQL_ACTION_TEST_MODE: true

.github/workflows/__cleanup-db-cluster-dir.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 - Clean up database cluster directory
+env:
+  GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }}
+  GO111MODULE: auto
+on:
+  push:
+    branches:
+      - main
+      - releases/v*
+  pull_request:
+    types:
+      - opened
+      - synchronize
+      - reopened
+      - ready_for_review
+  schedule:
+    - cron: '0 5 * * *'
+  workflow_dispatch:
+    inputs: {}
+  workflow_call:
+    inputs: {}
+defaults:
+  run:
+    shell: bash
+concurrency:
+  cancel-in-progress: ${{ github.event_name == 'pull_request' }}
+  group: ${{ github.workflow }}-${{ 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@v5
+      - 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

@@ -1,115 +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:
-#     (cd pr-checks; pip install ruamel.yaml@0.17.31 && python3 sync.py)
+#     pr-checks/sync.sh
 # to regenerate this file.
 
 name: PR Check - Config export
 env:
   GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }}
   GO111MODULE: auto
-  CODEQL_EXTRACTOR_JAVA_AGENT_DISABLE_KOTLIN: 'true'
 on:
   push:
     branches:
-    - main
-    - releases/v*
+      - main
+      - releases/v*
   pull_request:
     types:
-    - opened
-    - synchronize
-    - reopened
-    - ready_for_review
-  workflow_dispatch: {}
+      - opened
+      - synchronize
+      - reopened
+      - ready_for_review
+  schedule:
+    - cron: '0 5 * * *'
+  workflow_dispatch:
+    inputs: {}
+  workflow_call:
+    inputs: {}
+defaults:
+  run:
+    shell: bash
+concurrency:
+  cancel-in-progress: ${{ github.event_name == 'pull_request' }}
+  group: ${{ github.workflow }}-${{ github.ref }}
 jobs:
   config-export:
     strategy:
+      fail-fast: false
       matrix:
         include:
-        - os: ubuntu-latest
-          version: latest
-        - os: macos-latest
-          version: latest
-        - os: windows-latest
-          version: latest
-        - os: ubuntu-latest
-          version: nightly-latest
-        - os: macos-latest
-          version: nightly-latest
-        - os: windows-latest
-          version: nightly-latest
+          - os: ubuntu-latest
+            version: linked
+          - os: macos-latest
+            version: linked
+          - os: windows-latest
+            version: linked
+          - os: ubuntu-latest
+            version: nightly-latest
+          - os: macos-latest
+            version: nightly-latest
+          - os: windows-latest
+            version: nightly-latest
     name: Config export
+    if: github.triggering_actor != 'dependabot[bot]'
     permissions:
       contents: read
-      security-events: write
+      security-events: read
     timeout-minutes: 45
     runs-on: ${{ matrix.os }}
     steps:
-    - name: Setup Python on MacOS
-      uses: actions/setup-python@v5
-      if: >-
-        matrix.os == 'macos-latest' && (
+      - name: Check out repository
+        uses: actions/checkout@v5
+      - 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: ${{ runner.temp }}/results
+          upload-database: false
+      - name: Upload SARIF
+        uses: actions/upload-artifact@v4
+        with:
+          name: config-export-${{ 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@v8
+        env:
+          SARIF_PATH: ${{ runner.temp }}/results/javascript.sarif
+        with:
+          script: |
+            const fs = require('fs');
 
-        matrix.version == 'stable-20221211' ||
+            const sarif = JSON.parse(fs.readFileSync(process.env['SARIF_PATH'], 'utf8'));
+            const run = sarif.runs[0];
+            const configSummary = run.properties.codeqlConfigSummary;
 
-        matrix.version == 'stable-20230418' ||
-
-        matrix.version == 'stable-v2.13.5' ||
-
-        matrix.version == 'stable-v2.14.6')
-      with:
-        python-version: '3.11'
-    - name: Check out repository
-      uses: actions/checkout@v4
-    - name: Prepare test
-      id: prepare-test
-      uses: ./.github/actions/prepare-test
-      with:
-        version: ${{ matrix.version }}
-        use-all-platform-bundle: 'false'
-    - name: Set environment variable for Swift enablement
-      if: runner.os != 'Windows' && matrix.version == '20221211'
-      shell: bash
-      run: echo "CODEQL_ENABLE_EXPERIMENTAL_FEATURES_SWIFT=true" >> $GITHUB_ENV
-    - uses: ./../action/init
-      with:
-        languages: javascript
-        queries: security-extended
-        tools: ${{ steps.prepare-test.outputs.tools-url }}
-    - uses: ./../action/analyze
-      with:
-        output: ${{ runner.temp }}/results
-        upload-database: false
-    - name: Upload SARIF
-      uses: actions/upload-artifact@v3
-      with:
-        name: config-export-${{ 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@v7
-      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.');
+            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

@@ -1,92 +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:
-#     (cd pr-checks; pip install ruamel.yaml@0.17.31 && python3 sync.py)
+#     pr-checks/sync.sh
 # to regenerate this file.
 
 name: PR Check - Config input
 env:
   GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }}
   GO111MODULE: auto
-  CODEQL_EXTRACTOR_JAVA_AGENT_DISABLE_KOTLIN: 'true'
 on:
   push:
     branches:
-    - main
-    - releases/v*
+      - main
+      - releases/v*
   pull_request:
     types:
-    - opened
-    - synchronize
-    - reopened
-    - ready_for_review
-  workflow_dispatch: {}
+      - opened
+      - synchronize
+      - reopened
+      - ready_for_review
+  schedule:
+    - cron: '0 5 * * *'
+  workflow_dispatch:
+    inputs: {}
+  workflow_call:
+    inputs: {}
+defaults:
+  run:
+    shell: bash
+concurrency:
+  cancel-in-progress: ${{ github.event_name == 'pull_request' }}
+  group: ${{ github.workflow }}-${{ github.ref }}
 jobs:
   config-input:
     strategy:
+      fail-fast: false
       matrix:
         include:
-        - os: ubuntu-latest
-          version: latest
+          - os: ubuntu-latest
+            version: linked
     name: Config input
+    if: github.triggering_actor != 'dependabot[bot]'
     permissions:
       contents: read
-      security-events: write
+      security-events: read
     timeout-minutes: 45
     runs-on: ${{ matrix.os }}
     steps:
-    - name: Setup Python on MacOS
-      uses: actions/setup-python@v5
-      if: >-
-        matrix.os == 'macos-latest' && (
+      - name: Check out repository
+        uses: actions/checkout@v5
+      - name: Install Node.js
+        uses: actions/setup-node@v5
+        with:
+          node-version: 20.x
+          cache: npm
+      - 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 .
 
-        matrix.version == 'stable-20221211' ||
+      - 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
 
-        matrix.version == 'stable-20230418' ||
+      - uses: ./../action/analyze
+        with:
+          output: ${{ runner.temp }}/results
 
-        matrix.version == 'stable-v2.13.5' ||
-
-        matrix.version == 'stable-v2.14.6')
-      with:
-        python-version: '3.11'
-    - name: Check out repository
-      uses: actions/checkout@v4
-    - name: Prepare test
-      id: prepare-test
-      uses: ./.github/actions/prepare-test
-      with:
-        version: ${{ matrix.version }}
-        use-all-platform-bundle: 'false'
-    - name: Set environment variable for Swift enablement
-      if: runner.os != 'Windows' && matrix.version == '20221211'
-      shell: bash
-      run: echo "CODEQL_ENABLE_EXPERIMENTAL_FEATURES_SWIFT=true" >> $GITHUB_ENV
-    - 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
+      - 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

@@ -1,88 +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:
-#     (cd pr-checks; pip install ruamel.yaml@0.17.31 && python3 sync.py)
+#     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
-  CODEQL_EXTRACTOR_JAVA_AGENT_DISABLE_KOTLIN: 'true'
 on:
   push:
     branches:
-    - main
-    - releases/v*
+      - main
+      - releases/v*
   pull_request:
     types:
-    - opened
-    - synchronize
-    - reopened
-    - ready_for_review
-  workflow_dispatch: {}
+      - opened
+      - synchronize
+      - reopened
+      - ready_for_review
+  schedule:
+    - cron: '0 5 * * *'
+  workflow_dispatch:
+    inputs: {}
+  workflow_call:
+    inputs: {}
+defaults:
+  run:
+    shell: bash
+concurrency:
+  cancel-in-progress: ${{ github.event_name == 'pull_request' }}
+  group: ${{ github.workflow }}-${{ github.ref }}
 jobs:
   cpp-deptrace-disabled:
     strategy:
+      fail-fast: false
       matrix:
         include:
-        - os: ubuntu-latest
-          version: latest
-        - os: ubuntu-latest
-          version: default
-        - os: ubuntu-latest
-          version: nightly-latest
+          - 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: write
+      security-events: read
     timeout-minutes: 45
     runs-on: ${{ matrix.os }}
     steps:
-    - name: Setup Python on MacOS
-      uses: actions/setup-python@v5
-      if: >-
-        matrix.os == 'macos-latest' && (
-
-        matrix.version == 'stable-20221211' ||
-
-        matrix.version == 'stable-20230418' ||
-
-        matrix.version == 'stable-v2.13.5' ||
-
-        matrix.version == 'stable-v2.14.6')
-      with:
-        python-version: '3.11'
-    - name: Check out repository
-      uses: actions/checkout@v4
-    - name: Prepare test
-      id: prepare-test
-      uses: ./.github/actions/prepare-test
-      with:
-        version: ${{ matrix.version }}
-        use-all-platform-bundle: 'false'
-    - name: Set environment variable for Swift enablement
-      if: runner.os != 'Windows' && matrix.version == '20221211'
-      shell: bash
-      run: echo "CODEQL_ENABLE_EXPERIMENTAL_FEATURES_SWIFT=true" >> $GITHUB_ENV
-    - name: Test setup
-      shell: bash
-      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
-    - shell: bash
-      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
+      - name: Check out repository
+        uses: actions/checkout@v5
+      - 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

@@ -1,86 +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:
-#     (cd pr-checks; pip install ruamel.yaml@0.17.31 && python3 sync.py)
+#     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
-  CODEQL_EXTRACTOR_JAVA_AGENT_DISABLE_KOTLIN: 'true'
 on:
   push:
     branches:
-    - main
-    - releases/v*
+      - main
+      - releases/v*
   pull_request:
     types:
-    - opened
-    - synchronize
-    - reopened
-    - ready_for_review
-  workflow_dispatch: {}
+      - opened
+      - synchronize
+      - reopened
+      - ready_for_review
+  schedule:
+    - cron: '0 5 * * *'
+  workflow_dispatch:
+    inputs: {}
+  workflow_call:
+    inputs: {}
+defaults:
+  run:
+    shell: bash
+concurrency:
+  cancel-in-progress: ${{ github.event_name == 'pull_request' }}
+  group: ${{ github.workflow }}-${{ github.ref }}
 jobs:
   cpp-deptrace-enabled-on-macos:
     strategy:
+      fail-fast: false
       matrix:
         include:
-        - os: macos-latest
-          version: nightly-latest
+          - 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: write
+      security-events: read
     timeout-minutes: 45
     runs-on: ${{ matrix.os }}
     steps:
-    - name: Setup Python on MacOS
-      uses: actions/setup-python@v5
-      if: >-
-        matrix.os == 'macos-latest' && (
-
-        matrix.version == 'stable-20221211' ||
-
-        matrix.version == 'stable-20230418' ||
-
-        matrix.version == 'stable-v2.13.5' ||
-
-        matrix.version == 'stable-v2.14.6')
-      with:
-        python-version: '3.11'
-    - name: Check out repository
-      uses: actions/checkout@v4
-    - name: Prepare test
-      id: prepare-test
-      uses: ./.github/actions/prepare-test
-      with:
-        version: ${{ matrix.version }}
-        use-all-platform-bundle: 'false'
-    - name: Set environment variable for Swift enablement
-      if: runner.os != 'Windows' && matrix.version == '20221211'
-      shell: bash
-      run: echo "CODEQL_ENABLE_EXPERIMENTAL_FEATURES_SWIFT=true" >> $GITHUB_ENV
-    - name: Test setup
-      shell: bash
-      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
-    - shell: bash
-      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
+      - name: Check out repository
+        uses: actions/checkout@v5
+      - 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

@@ -1,88 +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:
-#     (cd pr-checks; pip install ruamel.yaml@0.17.31 && python3 sync.py)
+#     pr-checks/sync.sh
 # to regenerate this file.
 
 name: 'PR Check - C/C++: autoinstalling dependencies (Linux)'
 env:
   GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }}
   GO111MODULE: auto
-  CODEQL_EXTRACTOR_JAVA_AGENT_DISABLE_KOTLIN: 'true'
 on:
   push:
     branches:
-    - main
-    - releases/v*
+      - main
+      - releases/v*
   pull_request:
     types:
-    - opened
-    - synchronize
-    - reopened
-    - ready_for_review
-  workflow_dispatch: {}
+      - opened
+      - synchronize
+      - reopened
+      - ready_for_review
+  schedule:
+    - cron: '0 5 * * *'
+  workflow_dispatch:
+    inputs: {}
+  workflow_call:
+    inputs: {}
+defaults:
+  run:
+    shell: bash
+concurrency:
+  cancel-in-progress: ${{ github.event_name == 'pull_request' }}
+  group: ${{ github.workflow }}-${{ github.ref }}
 jobs:
   cpp-deptrace-enabled:
     strategy:
+      fail-fast: false
       matrix:
         include:
-        - os: ubuntu-latest
-          version: latest
-        - os: ubuntu-latest
-          version: default
-        - os: ubuntu-latest
-          version: nightly-latest
+          - 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: write
+      security-events: read
     timeout-minutes: 45
     runs-on: ${{ matrix.os }}
     steps:
-    - name: Setup Python on MacOS
-      uses: actions/setup-python@v5
-      if: >-
-        matrix.os == 'macos-latest' && (
-
-        matrix.version == 'stable-20221211' ||
-
-        matrix.version == 'stable-20230418' ||
-
-        matrix.version == 'stable-v2.13.5' ||
-
-        matrix.version == 'stable-v2.14.6')
-      with:
-        python-version: '3.11'
-    - name: Check out repository
-      uses: actions/checkout@v4
-    - name: Prepare test
-      id: prepare-test
-      uses: ./.github/actions/prepare-test
-      with:
-        version: ${{ matrix.version }}
-        use-all-platform-bundle: 'false'
-    - name: Set environment variable for Swift enablement
-      if: runner.os != 'Windows' && matrix.version == '20221211'
-      shell: bash
-      run: echo "CODEQL_ENABLE_EXPERIMENTAL_FEATURES_SWIFT=true" >> $GITHUB_ENV
-    - name: Test setup
-      shell: bash
-      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
-    - shell: bash
-      run: |
-        if ! ls /usr/bin/errno; then
-          echo "Did not autoinstall errno"
-          exit 1
-        fi
+      - name: Check out repository
+        uses: actions/checkout@v5
+      - 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

@@ -1,162 +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:
-#     (cd pr-checks; pip install ruamel.yaml@0.17.31 && python3 sync.py)
+#     pr-checks/sync.sh
 # to regenerate this file.
 
 name: PR Check - Diagnostic export
 env:
   GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }}
   GO111MODULE: auto
-  CODEQL_EXTRACTOR_JAVA_AGENT_DISABLE_KOTLIN: 'true'
 on:
   push:
     branches:
-    - main
-    - releases/v*
+      - main
+      - releases/v*
   pull_request:
     types:
-    - opened
-    - synchronize
-    - reopened
-    - ready_for_review
-  workflow_dispatch: {}
+      - opened
+      - synchronize
+      - reopened
+      - ready_for_review
+  schedule:
+    - cron: '0 5 * * *'
+  workflow_dispatch:
+    inputs: {}
+  workflow_call:
+    inputs: {}
+defaults:
+  run:
+    shell: bash
+concurrency:
+  cancel-in-progress: ${{ github.event_name == 'pull_request' }}
+  group: ${{ github.workflow }}-${{ github.ref }}
 jobs:
   diagnostics-export:
     strategy:
+      fail-fast: false
       matrix:
         include:
-        - os: ubuntu-latest
-          version: stable-20230317
-        - os: macos-latest
-          version: stable-20230317
-        - os: windows-latest
-          version: stable-20230317
-        - os: ubuntu-latest
-          version: latest
-        - os: macos-latest
-          version: latest
-        - os: windows-latest
-          version: latest
-        - os: ubuntu-latest
-          version: nightly-latest
-        - os: macos-latest
-          version: nightly-latest
-        - os: windows-latest
-          version: nightly-latest
+          - os: ubuntu-latest
+            version: linked
+          - os: macos-latest
+            version: linked
+          - os: windows-latest
+            version: linked
+          - os: ubuntu-latest
+            version: nightly-latest
+          - os: macos-latest
+            version: nightly-latest
+          - os: windows-latest
+            version: nightly-latest
     name: Diagnostic export
+    if: github.triggering_actor != 'dependabot[bot]'
     permissions:
       contents: read
-      security-events: write
+      security-events: read
     timeout-minutes: 45
     runs-on: ${{ matrix.os }}
     steps:
-    - name: Setup Python on MacOS
-      uses: actions/setup-python@v5
-      if: >-
-        matrix.os == 'macos-latest' && (
-
-        matrix.version == 'stable-20221211' ||
-
-        matrix.version == 'stable-20230418' ||
-
-        matrix.version == 'stable-v2.13.5' ||
-
-        matrix.version == 'stable-v2.14.6')
-      with:
-        python-version: '3.11'
-    - name: Check out repository
-      uses: actions/checkout@v4
-    - name: Prepare test
-      id: prepare-test
-      uses: ./.github/actions/prepare-test
-      with:
-        version: ${{ matrix.version }}
-        use-all-platform-bundle: 'false'
-    - name: Set environment variable for Swift enablement
-      if: runner.os != 'Windows' && matrix.version == '20221211'
-      shell: bash
-      run: echo "CODEQL_ENABLE_EXPERIMENTAL_FEATURES_SWIFT=true" >> $GITHUB_ENV
-    - uses: ./../action/init
-      id: init
-      with:
-        languages: javascript
-        tools: ${{ steps.prepare-test.outputs.tools-url }}
-    - name: Add test diagnostics
-      shell: bash
-      env:
-        CODEQL_PATH: ${{ steps.init.outputs.codeql-path }}
-      run: |
-        for i in {1..2}; do
-          # Use the same location twice to test the workaround for the bug in CodeQL CLI 2.12.5 that
-          # produces an invalid diagnostic with multiple identical location objects.
+      - name: Check out repository
+        uses: actions/checkout@v5
+      - 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 $i" \
+            --plaintext-message "Plaintext message" \
             --source-id "lang/diagnostics/example" \
             --source-name "Diagnostic name" \
             --ready-for-status-page
-        done
-    - uses: ./../action/analyze
-      with:
-        output: ${{ runner.temp }}/results
-        upload-database: false
-    - name: Upload SARIF
-      uses: actions/upload-artifact@v3
-      with:
-        name: diagnostics-export-${{ 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@v7
-      env:
-        SARIF_PATH: ${{ runner.temp }}/results/javascript.sarif
-      with:
-        script: |
-          const fs = require('fs');
+      - uses: ./../action/analyze
+        with:
+          output: ${{ runner.temp }}/results
+          upload-database: false
+      - name: Upload SARIF
+        uses: actions/upload-artifact@v4
+        with:
+          name: diagnostics-export-${{ 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@v8
+        env:
+          SARIF_PATH: ${{ runner.temp }}/results/javascript.sarif
+        with:
+          script: |
+            const fs = require('fs');
 
-          function checkStatusPageNotification(n) {
-            const expectedMessage = 'Plaintext message 1\n\nCodeQL also found 1 other diagnostic like this. See the workflow log for details.';
-            if (n.message.text !== expectedMessage) {
-              core.setFailed(`Expected the status page diagnostic to have the message '${expectedMessage}', but found '${n.message.text}'.`);
+            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}.`);
+              }
             }
-            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 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)}.`
+            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'
             );
-          }
-          checkStatusPageNotification(statusPageNotifications[0]);
+            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)}.`
+              );
+            }
 
-          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');
+            core.info('Finished diagnostic export test');
     env:
       CODEQL_ACTION_EXPORT_DIAGNOSTICS: true
       CODEQL_ACTION_TEST_MODE: true

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

@@ -1,109 +1,114 @@
 # Warning: This file is generated automatically, and should not be modified.
 # Instead, please modify the template in the pr-checks directory and run:
-#     (cd pr-checks; pip install ruamel.yaml@0.17.31 && python3 sync.py)
+#     pr-checks/sync.sh
 # to regenerate this file.
 
 name: PR Check - Export file baseline information
 env:
   GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }}
   GO111MODULE: auto
-  CODEQL_EXTRACTOR_JAVA_AGENT_DISABLE_KOTLIN: 'true'
 on:
   push:
     branches:
-    - main
-    - releases/v*
+      - main
+      - releases/v*
   pull_request:
     types:
-    - opened
-    - synchronize
-    - reopened
-    - ready_for_review
-  workflow_dispatch: {}
+      - opened
+      - synchronize
+      - reopened
+      - ready_for_review
+  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' }}
+  group: ${{ github.workflow }}-${{ github.ref }}
 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
+          - 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: write
+      security-events: read
     timeout-minutes: 45
     runs-on: ${{ matrix.os }}
     steps:
-    - name: Setup Python on MacOS
-      uses: actions/setup-python@v5
-      if: >-
-        matrix.os == 'macos-latest' && (
-
-        matrix.version == 'stable-20221211' ||
-
-        matrix.version == 'stable-20230418' ||
-
-        matrix.version == 'stable-v2.13.5' ||
-
-        matrix.version == 'stable-v2.14.6')
-      with:
-        python-version: '3.11'
-    - name: Check out repository
-      uses: actions/checkout@v4
-    - name: Prepare test
-      id: prepare-test
-      uses: ./.github/actions/prepare-test
-      with:
-        version: ${{ matrix.version }}
-        use-all-platform-bundle: 'false'
-    - name: Set environment variable for Swift enablement
-      if: runner.os != 'Windows' && matrix.version == '20221211'
-      shell: bash
-      run: echo "CODEQL_ENABLE_EXPERIMENTAL_FEATURES_SWIFT=true" >> $GITHUB_ENV
-    - uses: ./../action/init
-      id: init
-      with:
-        languages: javascript
-        tools: ${{ steps.prepare-test.outputs.tools-url }}
-    - uses: ./../action/.github/actions/setup-swift
-      with:
-        codeql-path: ${{ steps.init.outputs.codeql-path }}
-    - name: Build code
-      shell: bash
-      run: ./build.sh
-    - uses: ./../action/analyze
-      with:
-        output: ${{ runner.temp }}/results
-    - name: Upload SARIF
-      uses: actions/upload-artifact@v3
-      with:
-        name: with-baseline-information-${{ matrix.os }}-${{ matrix.version }}.sarif.json
-        path: ${{ runner.temp }}/results/javascript.sarif
-        retention-days: 7
-    - name: Check results
-      shell: bash
-      run: |
-        cd "$RUNNER_TEMP/results"
-        expected_baseline_languages="c csharp go java kotlin javascript python ruby"
-        if [[ $RUNNER_OS != "Windows" ]]; 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}'."
+      - name: Check out repository
+        uses: actions/checkout@v5
+      - 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 Go
+        uses: actions/setup-go@v6
+        with:
+          go-version: ${{ inputs.go-version || '>=1.21.0' }}
+          cache: false
+      - 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: ${{ runner.temp }}/results
+      - name: Upload SARIF
+        uses: actions/upload-artifact@v4
+        with:
+          name: with-baseline-information-${{ 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
-        done
+
+          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_SUBLANGUAGE_FILE_COVERAGE: true
       CODEQL_ACTION_TEST_MODE: true

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

@@ -1,88 +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:
-#     (cd pr-checks; pip install ruamel.yaml@0.17.31 && python3 sync.py)
+#     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
-  CODEQL_EXTRACTOR_JAVA_AGENT_DISABLE_KOTLIN: 'true'
 on:
   push:
     branches:
-    - main
-    - releases/v*
+      - main
+      - releases/v*
   pull_request:
     types:
-    - opened
-    - synchronize
-    - reopened
-    - ready_for_review
-  workflow_dispatch: {}
+      - opened
+      - synchronize
+      - reopened
+      - ready_for_review
+  schedule:
+    - cron: '0 5 * * *'
+  workflow_dispatch:
+    inputs: {}
+  workflow_call:
+    inputs: {}
+defaults:
+  run:
+    shell: bash
+concurrency:
+  cancel-in-progress: ${{ github.event_name == 'pull_request' }}
+  group: ${{ github.workflow }}-${{ github.ref }}
 jobs:
   extractor-ram-threads:
     strategy:
+      fail-fast: false
       matrix:
         include:
-        - os: ubuntu-latest
-          version: latest
+          - os: ubuntu-latest
+            version: linked
     name: Extractor ram and threads options test
+    if: github.triggering_actor != 'dependabot[bot]'
     permissions:
       contents: read
-      security-events: write
+      security-events: read
     timeout-minutes: 45
     runs-on: ${{ matrix.os }}
     steps:
-    - name: Setup Python on MacOS
-      uses: actions/setup-python@v5
-      if: >-
-        matrix.os == 'macos-latest' && (
-
-        matrix.version == 'stable-20221211' ||
-
-        matrix.version == 'stable-20230418' ||
-
-        matrix.version == 'stable-v2.13.5' ||
-
-        matrix.version == 'stable-v2.14.6')
-      with:
-        python-version: '3.11'
-    - name: Check out repository
-      uses: actions/checkout@v4
-    - name: Prepare test
-      id: prepare-test
-      uses: ./.github/actions/prepare-test
-      with:
-        version: ${{ matrix.version }}
-        use-all-platform-bundle: 'false'
-    - name: Set environment variable for Swift enablement
-      if: runner.os != 'Windows' && matrix.version == '20221211'
-      shell: bash
-      run: echo "CODEQL_ENABLE_EXPERIMENTAL_FEATURES_SWIFT=true" >> $GITHUB_ENV
-    - uses: ./../action/init
-      with:
-        languages: java
-        ram: 230
-        threads: 1
-    - name: Assert Results
-      shell: bash
-      run: |
-        if [ "${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
+      - name: Check out repository
+        uses: actions/checkout@v5
+      - 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/__go-custom-queries.yml

@@ -1,116 +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:
-#     (cd pr-checks; pip install ruamel.yaml@0.17.31 && python3 sync.py)
+#     pr-checks/sync.sh
 # to regenerate this file.
 
 name: 'PR Check - Go: Custom queries'
 env:
   GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }}
   GO111MODULE: auto
-  CODEQL_EXTRACTOR_JAVA_AGENT_DISABLE_KOTLIN: 'true'
 on:
   push:
     branches:
-    - main
-    - releases/v*
+      - main
+      - releases/v*
   pull_request:
     types:
-    - opened
-    - synchronize
-    - reopened
-    - ready_for_review
-  workflow_dispatch: {}
+      - opened
+      - synchronize
+      - reopened
+      - ready_for_review
+  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' }}
+  group: ${{ github.workflow }}-${{ github.ref }}
 jobs:
   go-custom-queries:
     strategy:
+      fail-fast: false
       matrix:
         include:
-        - os: ubuntu-latest
-          version: stable-20221211
-        - os: macos-latest
-          version: stable-20221211
-        - os: windows-latest
-          version: stable-20221211
-        - os: ubuntu-latest
-          version: stable-20230418
-        - os: macos-latest
-          version: stable-20230418
-        - os: windows-latest
-          version: stable-20230418
-        - os: ubuntu-latest
-          version: stable-v2.13.5
-        - os: macos-latest
-          version: stable-v2.13.5
-        - os: windows-latest
-          version: stable-v2.13.5
-        - os: ubuntu-latest
-          version: stable-v2.14.6
-        - os: macos-latest
-          version: stable-v2.14.6
-        - os: windows-latest
-          version: stable-v2.14.6
-        - os: ubuntu-latest
-          version: default
-        - os: macos-latest
-          version: default
-        - os: windows-latest
-          version: default
-        - os: ubuntu-latest
-          version: latest
-        - os: macos-latest
-          version: latest
-        - os: windows-latest
-          version: latest
-        - os: ubuntu-latest
-          version: nightly-latest
-        - os: macos-latest
-          version: nightly-latest
-        - os: windows-latest
-          version: nightly-latest
+          - 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: write
+      security-events: read
     timeout-minutes: 45
     runs-on: ${{ matrix.os }}
     steps:
-    - name: Setup Python on MacOS
-      uses: actions/setup-python@v5
-      if: >-
-        matrix.os == 'macos-latest' && (
-
-        matrix.version == 'stable-20221211' ||
-
-        matrix.version == 'stable-20230418' ||
-
-        matrix.version == 'stable-v2.13.5' ||
-
-        matrix.version == 'stable-v2.14.6')
-      with:
-        python-version: '3.11'
-    - name: Check out repository
-      uses: actions/checkout@v4
-    - name: Prepare test
-      id: prepare-test
-      uses: ./.github/actions/prepare-test
-      with:
-        version: ${{ matrix.version }}
-        use-all-platform-bundle: 'false'
-    - name: Set environment variable for Swift enablement
-      if: runner.os != 'Windows' && matrix.version == '20221211'
-      shell: bash
-      run: echo "CODEQL_ENABLE_EXPERIMENTAL_FEATURES_SWIFT=true" >> $GITHUB_ENV
-    - uses: ./../action/init
-      with:
-        languages: go
-        config-file: ./.github/codeql/custom-queries.yml
-        tools: ${{ steps.prepare-test.outputs.tools-url }}
-    - name: Build code
-      shell: bash
-      run: ./build.sh
-    - uses: ./../action/analyze
-      with:
-        upload-database: false
+      - name: Check out repository
+        uses: actions/checkout@v5
+      - 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 Go
+        uses: actions/setup-go@v6
+        with:
+          go-version: ${{ inputs.go-version || '>=1.21.0' }}
+          cache: false
+      - 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

@@ -1,106 +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:
-#     (cd pr-checks; pip install ruamel.yaml@0.17.31 && python3 sync.py)
+#     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
-  CODEQL_EXTRACTOR_JAVA_AGENT_DISABLE_KOTLIN: 'true'
 on:
   push:
     branches:
-    - main
-    - releases/v*
+      - main
+      - releases/v*
   pull_request:
     types:
-    - opened
-    - synchronize
-    - reopened
-    - ready_for_review
-  workflow_dispatch: {}
+      - opened
+      - synchronize
+      - reopened
+      - ready_for_review
+  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' }}
+  group: ${{ github.workflow }}-${{ github.ref }}
 jobs:
   go-indirect-tracing-workaround-diagnostic:
     strategy:
+      fail-fast: false
       matrix:
         include:
-        - os: ubuntu-latest
-          version: stable-v2.14.6
+          - 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: write
+      security-events: read
     timeout-minutes: 45
     runs-on: ${{ matrix.os }}
     steps:
-    - name: Setup Python on MacOS
-      uses: actions/setup-python@v5
-      if: >-
-        matrix.os == 'macos-latest' && (
-
-        matrix.version == 'stable-20221211' ||
-
-        matrix.version == 'stable-20230418' ||
-
-        matrix.version == 'stable-v2.13.5' ||
-
-        matrix.version == 'stable-v2.14.6')
-      with:
-        python-version: '3.11'
-    - name: Check out repository
-      uses: actions/checkout@v4
-    - name: Prepare test
-      id: prepare-test
-      uses: ./.github/actions/prepare-test
-      with:
-        version: ${{ matrix.version }}
-        use-all-platform-bundle: 'false'
-    - name: Set environment variable for Swift enablement
-      if: runner.os != 'Windows' && matrix.version == '20221211'
-      shell: bash
-      run: echo "CODEQL_ENABLE_EXPERIMENTAL_FEATURES_SWIFT=true" >> $GITHUB_ENV
-    - uses: actions/setup-go@v5
-      with:
-      # We need a Go version that ships with statically linked binaries on Linux
-        go-version: '>=1.21.0'
-    - uses: ./../action/init
-      with:
-        languages: go
-        tools: ${{ steps.prepare-test.outputs.tools-url }}
+      - name: Check out repository
+        uses: actions/checkout@v5
+      - 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 Go
+        uses: actions/setup-go@v6
+        with:
+          go-version: ${{ inputs.go-version || '>=1.21.0' }}
+          cache: false
+      - uses: ./../action/init
+        with:
+          languages: go
+          tools: ${{ steps.prepare-test.outputs.tools-url }}
   # Deliberately change Go after the `init` step
-    - uses: actions/setup-go@v5
-      with:
-        go-version: '1.20'
-    - name: Build code
-      shell: bash
-      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@v7
-      env:
-        SARIF_PATH: ${{ runner.temp }}/results/go.sarif
-      with:
-        script: |
-          const fs = require('fs');
+      - uses: actions/setup-go@v6
+        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@v8
+        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 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)}.`
+            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 +1,112 @@
+# 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:
+    types:
+      - opened
+      - synchronize
+      - reopened
+      - ready_for_review
+  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' }}
+  group: ${{ github.workflow }}-${{ github.ref }}
+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@v5
+      - 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 Go
+        uses: actions/setup-go@v6
+        with:
+          go-version: ${{ inputs.go-version || '>=1.21.0' }}
+          cache: false
+      - 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@v8
+        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

@@ -1,104 +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:
-#     (cd pr-checks; pip install ruamel.yaml@0.17.31 && python3 sync.py)
+#     pr-checks/sync.sh
 # to regenerate this file.
 
 name: 'PR Check - Go: workaround for indirect tracing'
 env:
   GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }}
   GO111MODULE: auto
-  CODEQL_EXTRACTOR_JAVA_AGENT_DISABLE_KOTLIN: 'true'
 on:
   push:
     branches:
-    - main
-    - releases/v*
+      - main
+      - releases/v*
   pull_request:
     types:
-    - opened
-    - synchronize
-    - reopened
-    - ready_for_review
-  workflow_dispatch: {}
+      - opened
+      - synchronize
+      - reopened
+      - ready_for_review
+  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' }}
+  group: ${{ github.workflow }}-${{ github.ref }}
 jobs:
   go-indirect-tracing-workaround:
     strategy:
+      fail-fast: false
       matrix:
         include:
-        - os: ubuntu-latest
-          version: stable-v2.14.6
+          - os: ubuntu-latest
+            version: default
     name: 'Go: workaround for indirect tracing'
+    if: github.triggering_actor != 'dependabot[bot]'
     permissions:
       contents: read
-      security-events: write
+      security-events: read
     timeout-minutes: 45
     runs-on: ${{ matrix.os }}
     steps:
-    - name: Setup Python on MacOS
-      uses: actions/setup-python@v5
-      if: >-
-        matrix.os == 'macos-latest' && (
-
-        matrix.version == 'stable-20221211' ||
-
-        matrix.version == 'stable-20230418' ||
-
-        matrix.version == 'stable-v2.13.5' ||
-
-        matrix.version == 'stable-v2.14.6')
-      with:
-        python-version: '3.11'
-    - name: Check out repository
-      uses: actions/checkout@v4
-    - name: Prepare test
-      id: prepare-test
-      uses: ./.github/actions/prepare-test
-      with:
-        version: ${{ matrix.version }}
-        use-all-platform-bundle: 'false'
-    - name: Set environment variable for Swift enablement
-      if: runner.os != 'Windows' && matrix.version == '20221211'
-      shell: bash
-      run: echo "CODEQL_ENABLE_EXPERIMENTAL_FEATURES_SWIFT=true" >> $GITHUB_ENV
-    - uses: actions/setup-go@v5
-      with:
-      # We need a Go version that ships with statically linked binaries on Linux
-        go-version: '>=1.21.0'
-    - uses: ./../action/init
-      with:
-        languages: go
-        tools: ${{ steps.prepare-test.outputs.tools-url }}
-    - name: Build code
-      shell: bash
-      run: go build main.go
-    - uses: ./../action/analyze
-      with:
-        upload-database: false
-    - shell: bash
-      run: |
-        if [[ -z "${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
+      - name: Check out repository
+        uses: actions/checkout@v5
+      - 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 Go
+        uses: actions/setup-go@v6
+        with:
+          go-version: ${{ inputs.go-version || '>=1.21.0' }}
+          cache: false
+      - 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
+          # 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

@@ -1,117 +1,126 @@
 # Warning: This file is generated automatically, and should not be modified.
 # Instead, please modify the template in the pr-checks directory and run:
-#     (cd pr-checks; pip install ruamel.yaml@0.17.31 && python3 sync.py)
+#     pr-checks/sync.sh
 # to regenerate this file.
 
 name: 'PR Check - Go: tracing with autobuilder step'
 env:
   GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }}
   GO111MODULE: auto
-  CODEQL_EXTRACTOR_JAVA_AGENT_DISABLE_KOTLIN: 'true'
 on:
   push:
     branches:
-    - main
-    - releases/v*
+      - main
+      - releases/v*
   pull_request:
     types:
-    - opened
-    - synchronize
-    - reopened
-    - ready_for_review
-  workflow_dispatch: {}
+      - opened
+      - synchronize
+      - reopened
+      - ready_for_review
+  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' }}
+  group: ${{ github.workflow }}-${{ github.ref }}
 jobs:
   go-tracing-autobuilder:
     strategy:
+      fail-fast: false
       matrix:
         include:
-        - os: ubuntu-latest
-          version: stable-20221211
-        - os: macos-latest
-          version: stable-20221211
-        - os: ubuntu-latest
-          version: stable-20230418
-        - os: macos-latest
-          version: stable-20230418
-        - os: ubuntu-latest
-          version: stable-v2.13.5
-        - os: macos-latest
-          version: stable-v2.13.5
-        - os: ubuntu-latest
-          version: stable-v2.14.6
-        - os: macos-latest
-          version: stable-v2.14.6
-        - os: ubuntu-latest
-          version: default
-        - os: macos-latest
-          version: default
-        - os: ubuntu-latest
-          version: latest
-        - os: macos-latest
-          version: latest
-        - os: ubuntu-latest
-          version: nightly-latest
-        - os: macos-latest
-          version: nightly-latest
+          - os: ubuntu-latest
+            version: stable-v2.17.6
+          - os: macos-latest
+            version: stable-v2.17.6
+          - os: ubuntu-latest
+            version: stable-v2.18.4
+          - os: macos-latest
+            version: stable-v2.18.4
+          - os: ubuntu-latest
+            version: stable-v2.19.4
+          - os: macos-latest
+            version: stable-v2.19.4
+          - os: ubuntu-latest
+            version: stable-v2.20.7
+          - os: macos-latest
+            version: stable-v2.20.7
+          - os: ubuntu-latest
+            version: stable-v2.21.4
+          - os: macos-latest
+            version: stable-v2.21.4
+          - os: ubuntu-latest
+            version: stable-v2.22.4
+          - os: macos-latest
+            version: stable-v2.22.4
+          - os: ubuntu-latest
+            version: default
+          - os: macos-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: write
+      security-events: read
     timeout-minutes: 45
     runs-on: ${{ matrix.os }}
     steps:
-    - name: Setup Python on MacOS
-      uses: actions/setup-python@v5
-      if: >-
-        matrix.os == 'macos-latest' && (
-
-        matrix.version == 'stable-20221211' ||
-
-        matrix.version == 'stable-20230418' ||
-
-        matrix.version == 'stable-v2.13.5' ||
-
-        matrix.version == 'stable-v2.14.6')
-      with:
-        python-version: '3.11'
-    - name: Check out repository
-      uses: actions/checkout@v4
-    - name: Prepare test
-      id: prepare-test
-      uses: ./.github/actions/prepare-test
-      with:
-        version: ${{ matrix.version }}
-        use-all-platform-bundle: 'false'
-    - name: Set environment variable for Swift enablement
-      if: runner.os != 'Windows' && matrix.version == '20221211'
-      shell: bash
-      run: echo "CODEQL_ENABLE_EXPERIMENTAL_FEATURES_SWIFT=true" >> $GITHUB_ENV
-    - uses: actions/setup-go@v5
-      with:
-        go-version: ~1.22.0
-      # to avoid potentially misleading autobuilder results where we expect it to download
-      # dependencies successfully, but they actually come from a warm cache
-        cache: false
-    - uses: ./../action/init
-      with:
-        languages: go
-        tools: ${{ steps.prepare-test.outputs.tools-url }}
-    - uses: ./../action/autobuild
-    - uses: ./../action/analyze
-      with:
-        upload-database: false
-    - shell: bash
-      run: |
-        if [[ "${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
+      - name: Check out repository
+        uses: actions/checkout@v5
+      - 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 Go
+        uses: actions/setup-go@v6
+        with:
+          go-version: ${{ inputs.go-version || '>=1.21.0' }}
+          cache: false
+      - 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

@@ -1,121 +1,129 @@
 # Warning: This file is generated automatically, and should not be modified.
 # Instead, please modify the template in the pr-checks directory and run:
-#     (cd pr-checks; pip install ruamel.yaml@0.17.31 && python3 sync.py)
+#     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
-  CODEQL_EXTRACTOR_JAVA_AGENT_DISABLE_KOTLIN: 'true'
 on:
   push:
     branches:
-    - main
-    - releases/v*
+      - main
+      - releases/v*
   pull_request:
     types:
-    - opened
-    - synchronize
-    - reopened
-    - ready_for_review
-  workflow_dispatch: {}
+      - opened
+      - synchronize
+      - reopened
+      - ready_for_review
+  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' }}
+  group: ${{ github.workflow }}-${{ github.ref }}
 jobs:
   go-tracing-custom-build-steps:
     strategy:
+      fail-fast: false
       matrix:
         include:
-        - os: ubuntu-latest
-          version: stable-20221211
-        - os: macos-latest
-          version: stable-20221211
-        - os: ubuntu-latest
-          version: stable-20230418
-        - os: macos-latest
-          version: stable-20230418
-        - os: ubuntu-latest
-          version: stable-v2.13.5
-        - os: macos-latest
-          version: stable-v2.13.5
-        - os: ubuntu-latest
-          version: stable-v2.14.6
-        - os: macos-latest
-          version: stable-v2.14.6
-        - os: ubuntu-latest
-          version: default
-        - os: macos-latest
-          version: default
-        - os: ubuntu-latest
-          version: latest
-        - os: macos-latest
-          version: latest
-        - os: ubuntu-latest
-          version: nightly-latest
-        - os: macos-latest
-          version: nightly-latest
+          - os: ubuntu-latest
+            version: stable-v2.17.6
+          - os: macos-latest
+            version: stable-v2.17.6
+          - os: ubuntu-latest
+            version: stable-v2.18.4
+          - os: macos-latest
+            version: stable-v2.18.4
+          - os: ubuntu-latest
+            version: stable-v2.19.4
+          - os: macos-latest
+            version: stable-v2.19.4
+          - os: ubuntu-latest
+            version: stable-v2.20.7
+          - os: macos-latest
+            version: stable-v2.20.7
+          - os: ubuntu-latest
+            version: stable-v2.21.4
+          - os: macos-latest
+            version: stable-v2.21.4
+          - os: ubuntu-latest
+            version: stable-v2.22.4
+          - os: macos-latest
+            version: stable-v2.22.4
+          - os: ubuntu-latest
+            version: default
+          - os: macos-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: write
+      security-events: read
     timeout-minutes: 45
     runs-on: ${{ matrix.os }}
     steps:
-    - name: Setup Python on MacOS
-      uses: actions/setup-python@v5
-      if: >-
-        matrix.os == 'macos-latest' && (
-
-        matrix.version == 'stable-20221211' ||
-
-        matrix.version == 'stable-20230418' ||
-
-        matrix.version == 'stable-v2.13.5' ||
-
-        matrix.version == 'stable-v2.14.6')
-      with:
-        python-version: '3.11'
-    - name: Check out repository
-      uses: actions/checkout@v4
-    - name: Prepare test
-      id: prepare-test
-      uses: ./.github/actions/prepare-test
-      with:
-        version: ${{ matrix.version }}
-        use-all-platform-bundle: 'false'
-    - name: Set environment variable for Swift enablement
-      if: runner.os != 'Windows' && matrix.version == '20221211'
-      shell: bash
-      run: echo "CODEQL_ENABLE_EXPERIMENTAL_FEATURES_SWIFT=true" >> $GITHUB_ENV
-    - uses: actions/setup-go@v5
-      with:
-        go-version: ~1.22.0
-      # to avoid potentially misleading autobuilder results where we expect it to download
-      # dependencies successfully, but they actually come from a warm cache
-        cache: false
-    - uses: ./../action/init
-      with:
-        languages: go
-        tools: ${{ steps.prepare-test.outputs.tools-url }}
-    - name: Build code
-      shell: bash
-      run: go build main.go
-    - uses: ./../action/analyze
-      with:
-        upload-database: false
-    - shell: bash
-      run: |
-        # Once we start running Bash 4.2 in all environments, we can replace the
-        # `! -z` flag with the more elegant `-v` which confirms that the variable
-        # is actually unset and not potentially set to a blank value.
-        if [[ ! -z "${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
+      - name: Check out repository
+        uses: actions/checkout@v5
+      - 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 Go
+        uses: actions/setup-go@v6
+        with:
+          go-version: ${{ inputs.go-version || '>=1.21.0' }}
+          cache: false
+      - 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

@@ -1,111 +1,120 @@
 # Warning: This file is generated automatically, and should not be modified.
 # Instead, please modify the template in the pr-checks directory and run:
-#     (cd pr-checks; pip install ruamel.yaml@0.17.31 && python3 sync.py)
+#     pr-checks/sync.sh
 # to regenerate this file.
 
 name: 'PR Check - Go: tracing with legacy workflow'
 env:
   GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }}
   GO111MODULE: auto
-  CODEQL_EXTRACTOR_JAVA_AGENT_DISABLE_KOTLIN: 'true'
 on:
   push:
     branches:
-    - main
-    - releases/v*
+      - main
+      - releases/v*
   pull_request:
     types:
-    - opened
-    - synchronize
-    - reopened
-    - ready_for_review
-  workflow_dispatch: {}
+      - opened
+      - synchronize
+      - reopened
+      - ready_for_review
+  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' }}
+  group: ${{ github.workflow }}-${{ github.ref }}
 jobs:
   go-tracing-legacy-workflow:
     strategy:
+      fail-fast: false
       matrix:
         include:
-        - os: ubuntu-latest
-          version: stable-20221211
-        - os: macos-latest
-          version: stable-20221211
-        - os: ubuntu-latest
-          version: stable-20230418
-        - os: macos-latest
-          version: stable-20230418
-        - os: ubuntu-latest
-          version: stable-v2.13.5
-        - os: macos-latest
-          version: stable-v2.13.5
-        - os: ubuntu-latest
-          version: stable-v2.14.6
-        - os: macos-latest
-          version: stable-v2.14.6
-        - os: ubuntu-latest
-          version: default
-        - os: macos-latest
-          version: default
-        - os: ubuntu-latest
-          version: latest
-        - os: macos-latest
-          version: latest
-        - os: ubuntu-latest
-          version: nightly-latest
-        - os: macos-latest
-          version: nightly-latest
+          - os: ubuntu-latest
+            version: stable-v2.17.6
+          - os: macos-latest
+            version: stable-v2.17.6
+          - os: ubuntu-latest
+            version: stable-v2.18.4
+          - os: macos-latest
+            version: stable-v2.18.4
+          - os: ubuntu-latest
+            version: stable-v2.19.4
+          - os: macos-latest
+            version: stable-v2.19.4
+          - os: ubuntu-latest
+            version: stable-v2.20.7
+          - os: macos-latest
+            version: stable-v2.20.7
+          - os: ubuntu-latest
+            version: stable-v2.21.4
+          - os: macos-latest
+            version: stable-v2.21.4
+          - os: ubuntu-latest
+            version: stable-v2.22.4
+          - os: macos-latest
+            version: stable-v2.22.4
+          - os: ubuntu-latest
+            version: default
+          - os: macos-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: write
+      security-events: read
     timeout-minutes: 45
     runs-on: ${{ matrix.os }}
     steps:
-    - name: Setup Python on MacOS
-      uses: actions/setup-python@v5
-      if: >-
-        matrix.os == 'macos-latest' && (
-
-        matrix.version == 'stable-20221211' ||
-
-        matrix.version == 'stable-20230418' ||
-
-        matrix.version == 'stable-v2.13.5' ||
-
-        matrix.version == 'stable-v2.14.6')
-      with:
-        python-version: '3.11'
-    - name: Check out repository
-      uses: actions/checkout@v4
-    - name: Prepare test
-      id: prepare-test
-      uses: ./.github/actions/prepare-test
-      with:
-        version: ${{ matrix.version }}
-        use-all-platform-bundle: 'false'
-    - name: Set environment variable for Swift enablement
-      if: runner.os != 'Windows' && matrix.version == '20221211'
-      shell: bash
-      run: echo "CODEQL_ENABLE_EXPERIMENTAL_FEATURES_SWIFT=true" >> $GITHUB_ENV
-    - uses: actions/setup-go@v5
-      with:
-        go-version: ~1.22.0
-      # to avoid potentially misleading autobuilder results where we expect it to download
-      # dependencies successfully, but they actually come from a warm cache
-        cache: false
-    - uses: ./../action/init
-      with:
-        languages: go
-        tools: ${{ steps.prepare-test.outputs.tools-url }}
-    - uses: ./../action/analyze
-      with:
-        upload-database: false
-    - shell: bash
-      run: |
-        cd "$RUNNER_TEMP/codeql_databases"
-        if [[ ! -d go ]]; then
-          echo "Did not find a Go database"
-          exit 1
-        fi
+      - name: Check out repository
+        uses: actions/checkout@v5
+      - 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 Go
+        uses: actions/setup-go@v6
+        with:
+          go-version: ${{ inputs.go-version || '>=1.21.0' }}
+          cache: false
+      - 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/__go.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: Manual Check - go
+env:
+  GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }}
+  GO111MODULE: auto
+on:
+  push:
+    paths:
+      - .github/workflows/__go.yml
+  workflow_dispatch:
+    inputs:
+      go-version:
+        type: string
+        description: The version of Go to install
+        required: false
+        default: '>=1.21.0'
+jobs:
+  go-custom-queries:
+    name: 'Go: Custom queries'
+    permissions:
+      contents: read
+      security-events: read
+    uses: ./.github/workflows/__go-custom-queries.yml
+    with:
+      go-version: ${{ inputs.go-version }}
+  go-indirect-tracing-workaround-diagnostic:
+    name: 'Go: diagnostic when Go is changed after init step'
+    permissions:
+      contents: read
+      security-events: read
+    uses: ./.github/workflows/__go-indirect-tracing-workaround-diagnostic.yml
+    with:
+      go-version: ${{ inputs.go-version }}
+  go-indirect-tracing-workaround-no-file-program:
+    name: 'Go: diagnostic when `file` is not installed'
+    permissions:
+      contents: read
+      security-events: read
+    uses: ./.github/workflows/__go-indirect-tracing-workaround-no-file-program.yml
+    with:
+      go-version: ${{ inputs.go-version }}
+  go-indirect-tracing-workaround:
+    name: 'Go: workaround for indirect tracing'
+    permissions:
+      contents: read
+      security-events: read
+    uses: ./.github/workflows/__go-indirect-tracing-workaround.yml
+    with:
+      go-version: ${{ inputs.go-version }}
+  go-tracing-autobuilder:
+    name: 'Go: tracing with autobuilder step'
+    permissions:
+      contents: read
+      security-events: read
+    uses: ./.github/workflows/__go-tracing-autobuilder.yml
+    with:
+      go-version: ${{ inputs.go-version }}
+  go-tracing-custom-build-steps:
+    name: 'Go: tracing with custom build steps'
+    permissions:
+      contents: read
+      security-events: read
+    uses: ./.github/workflows/__go-tracing-custom-build-steps.yml
+    with:
+      go-version: ${{ inputs.go-version }}
+  go-tracing-legacy-workflow:
+    name: 'Go: tracing with legacy workflow'
+    permissions:
+      contents: read
+      security-events: read
+    uses: ./.github/workflows/__go-tracing-legacy-workflow.yml
+    with:
+      go-version: ${{ inputs.go-version }}

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

@@ -1,49 +1,61 @@
 # Warning: This file is generated automatically, and should not be modified.
 # Instead, please modify the template in the pr-checks directory and run:
-#     (cd pr-checks; pip install ruamel.yaml@0.17.31 && python3 sync.py)
+#     pr-checks/sync.sh
 # to regenerate this file.
 
 name: 'PR Check - Packaging: Download using registries'
 env:
   GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }}
   GO111MODULE: auto
-  CODEQL_EXTRACTOR_JAVA_AGENT_DISABLE_KOTLIN: 'true'
 on:
   push:
     branches:
-    - main
-    - releases/v*
+      - main
+      - releases/v*
   pull_request:
     types:
-    - opened
-    - synchronize
-    - reopened
-    - ready_for_review
-  workflow_dispatch: {}
+      - opened
+      - synchronize
+      - reopened
+      - ready_for_review
+  schedule:
+    - cron: '0 5 * * *'
+  workflow_dispatch:
+    inputs: {}
+  workflow_call:
+    inputs: {}
+defaults:
+  run:
+    shell: bash
+concurrency:
+  cancel-in-progress: ${{ github.event_name == 'pull_request' }}
+  group: ${{ github.workflow }}-${{ github.ref }}
 jobs:
   init-with-registries:
     strategy:
+      fail-fast: false
       matrix:
         include:
-        - os: ubuntu-latest
-          version: default
-        - os: macos-latest
-          version: default
-        - os: windows-latest
-          version: default
-        - os: ubuntu-latest
-          version: latest
-        - os: macos-latest
-          version: latest
-        - os: windows-latest
-          version: latest
-        - os: ubuntu-latest
-          version: nightly-latest
-        - os: macos-latest
-          version: nightly-latest
-        - os: windows-latest
-          version: nightly-latest
+          - os: ubuntu-latest
+            version: default
+          - os: macos-latest
+            version: default
+          - os: windows-latest
+            version: default
+          - os: ubuntu-latest
+            version: linked
+          - os: macos-latest
+            version: linked
+          - os: windows-latest
+            version: linked
+          - os: ubuntu-latest
+            version: nightly-latest
+          - os: macos-latest
+            version: nightly-latest
+          - os: windows-latest
+            version: nightly-latest
     name: 'Packaging: Download using registries'
+    if: github.triggering_actor != 'dependabot[bot]'
     permissions:
       contents: read
       packages: read
@@ -51,94 +63,74 @@ jobs:
     timeout-minutes: 45
     runs-on: ${{ matrix.os }}
     steps:
-    - name: Setup Python on MacOS
-      uses: actions/setup-python@v5
-      if: >-
-        matrix.os == 'macos-latest' && (
+      - name: Check out repository
+        uses: actions/checkout@v5
+      - 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 }}"
 
-        matrix.version == 'stable-20221211' ||
+      - name: Verify packages installed
+        run: |
+          PRIVATE_PACK="$HOME/.codeql/packages/codeql-testing/private-pack"
+          CODEQL_PACK1="$HOME/.codeql/packages/codeql-testing/codeql-pack1"
 
-        matrix.version == 'stable-20230418' ||
+          if [[ -d $PRIVATE_PACK ]]
+          then
+              echo "$PRIVATE_PACK was installed."
+          else
+              echo "::error $PRIVATE_PACK pack was not installed."
+              exit 1
+          fi
 
-        matrix.version == 'stable-v2.13.5' ||
+          if [[ -d $CODEQL_PACK1 ]]
+          then
+              echo "$CODEQL_PACK1 was installed."
+          else
+              echo "::error $CODEQL_PACK1 pack was not installed."
+              exit 1
+          fi
 
-        matrix.version == 'stable-v2.14.6')
-      with:
-        python-version: '3.11'
-    - name: Check out repository
-      uses: actions/checkout@v4
-    - name: Prepare test
-      id: prepare-test
-      uses: ./.github/actions/prepare-test
-      with:
-        version: ${{ matrix.version }}
-        use-all-platform-bundle: 'false'
-    - name: Set environment variable for Swift enablement
-      if: runner.os != 'Windows' && matrix.version == '20221211'
-      shell: bash
-      run: echo "CODEQL_ENABLE_EXPERIMENTAL_FEATURES_SWIFT=true" >> $GITHUB_ENV
-    - 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 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 packages installed
-      shell: bash
-      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 $CODEQL_PACK1 pack was not installed."
-            exit 1
-        fi
-
-    - name: Verify qlconfig.yml file was created
-      shell: bash
-      run: |
-        QLCONFIG_PATH=$RUNNER_TEMP/qlconfig.yml
-        echo "Expected qlconfig.yml file to be created at $QLCONFIG_PATH"
-        if [[ -f $QLCONFIG_PATH ]]
-        then
-            echo "qlconfig.yml file was created."
-        else
-            echo "::error qlconfig.yml file was not created."
-            exit 1
-        fi
-
-    - name: Verify contents of qlconfig.yml
+      - name: Verify contents of qlconfig.yml
     # yq is not available on windows
-      if: runner.os != 'Windows'
-      shell: bash
-      run: |
-        QLCONFIG_PATH=$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 $QLCONFIG_PATH
-            exit 1
-        fi
+        if: runner.os != 'Windows'
+        run: |
+          QLCONFIG_PATH=$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

@@ -1,91 +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:
-#     (cd pr-checks; pip install ruamel.yaml@0.17.31 && python3 sync.py)
+#     pr-checks/sync.sh
 # to regenerate this file.
 
 name: PR Check - Custom source root
 env:
   GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }}
   GO111MODULE: auto
-  CODEQL_EXTRACTOR_JAVA_AGENT_DISABLE_KOTLIN: 'true'
 on:
   push:
     branches:
-    - main
-    - releases/v*
+      - main
+      - releases/v*
   pull_request:
     types:
-    - opened
-    - synchronize
-    - reopened
-    - ready_for_review
-  workflow_dispatch: {}
+      - opened
+      - synchronize
+      - reopened
+      - ready_for_review
+  schedule:
+    - cron: '0 5 * * *'
+  workflow_dispatch:
+    inputs: {}
+  workflow_call:
+    inputs: {}
+defaults:
+  run:
+    shell: bash
+concurrency:
+  cancel-in-progress: ${{ github.event_name == 'pull_request' }}
+  group: ${{ github.workflow }}-${{ github.ref }}
 jobs:
   javascript-source-root:
     strategy:
+      fail-fast: false
       matrix:
         include:
-        - os: ubuntu-latest
-          version: latest
-        - os: ubuntu-latest
-          version: default
-        - os: ubuntu-latest
-          version: nightly-latest
+          - 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: write
+      security-events: read
     timeout-minutes: 45
     runs-on: ${{ matrix.os }}
     steps:
-    - name: Setup Python on MacOS
-      uses: actions/setup-python@v5
-      if: >-
-        matrix.os == 'macos-latest' && (
-
-        matrix.version == 'stable-20221211' ||
-
-        matrix.version == 'stable-20230418' ||
-
-        matrix.version == 'stable-v2.13.5' ||
-
-        matrix.version == 'stable-v2.14.6')
-      with:
-        python-version: '3.11'
-    - name: Check out repository
-      uses: actions/checkout@v4
-    - name: Prepare test
-      id: prepare-test
-      uses: ./.github/actions/prepare-test
-      with:
-        version: ${{ matrix.version }}
-        use-all-platform-bundle: 'false'
-    - name: Set environment variable for Swift enablement
-      if: runner.os != 'Windows' && matrix.version == '20221211'
-      shell: bash
-      run: echo "CODEQL_ENABLE_EXPERIMENTAL_FEATURES_SWIFT=true" >> $GITHUB_ENV
-    - name: Move codeql-action
-      shell: bash
-      run: |
-        mkdir ../new-source-root
-        mv * ../new-source-root
-    - uses: ./../action/init
-      with:
-        languages: javascript
-        source-root: ../new-source-root
-        tools: ${{ steps.prepare-test.outputs.tools-url }}
-    - uses: ./../action/analyze
-      with:
-        upload-database: false
-        skip-queries: true
-        upload: never
-    - name: Assert database exists
-      shell: bash
-      run: |
-        cd "$RUNNER_TEMP/codeql_databases"
-        if [[ ! -d javascript ]]; then
-          echo "Did not find a JavaScript database"
-          exit 1
-        fi
+      - name: Check out repository
+        uses: actions/checkout@v5
+      - 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 +1,83 @@
+# 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 - Job run UUID added to SARIF
+env:
+  GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }}
+  GO111MODULE: auto
+on:
+  push:
+    branches:
+      - main
+      - releases/v*
+  pull_request:
+    types:
+      - opened
+      - synchronize
+      - reopened
+      - ready_for_review
+  schedule:
+    - cron: '0 5 * * *'
+  workflow_dispatch:
+    inputs: {}
+  workflow_call:
+    inputs: {}
+defaults:
+  run:
+    shell: bash
+concurrency:
+  cancel-in-progress: ${{ github.event_name == 'pull_request' }}
+  group: ${{ github.workflow }}-${{ 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@v5
+      - 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@v4
+        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" != "$JOB_RUN_UUID" ]]; then
+            echo "Expected SARIF output to contain job run UUID '$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

@@ -1,79 +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:
-#     (cd pr-checks; pip install ruamel.yaml@0.17.31 && python3 sync.py)
+#     pr-checks/sync.sh
 # to regenerate this file.
 
 name: PR Check - Language aliases
 env:
   GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }}
   GO111MODULE: auto
-  CODEQL_EXTRACTOR_JAVA_AGENT_DISABLE_KOTLIN: 'true'
 on:
   push:
     branches:
-    - main
-    - releases/v*
+      - main
+      - releases/v*
   pull_request:
     types:
-    - opened
-    - synchronize
-    - reopened
-    - ready_for_review
-  workflow_dispatch: {}
+      - opened
+      - synchronize
+      - reopened
+      - ready_for_review
+  schedule:
+    - cron: '0 5 * * *'
+  workflow_dispatch:
+    inputs: {}
+  workflow_call:
+    inputs: {}
+defaults:
+  run:
+    shell: bash
+concurrency:
+  cancel-in-progress: ${{ github.event_name == 'pull_request' }}
+  group: ${{ github.workflow }}-${{ github.ref }}
 jobs:
   language-aliases:
     strategy:
+      fail-fast: false
       matrix:
         include:
-        - os: ubuntu-latest
-          version: latest
+          - os: ubuntu-latest
+            version: linked
     name: Language aliases
+    if: github.triggering_actor != 'dependabot[bot]'
     permissions:
       contents: read
-      security-events: write
+      security-events: read
     timeout-minutes: 45
     runs-on: ${{ matrix.os }}
     steps:
-    - name: Setup Python on MacOS
-      uses: actions/setup-python@v5
-      if: >-
-        matrix.os == 'macos-latest' && (
+      - name: Check out repository
+        uses: actions/checkout@v5
+      - 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,swift,typescript
+          tools: ${{ steps.prepare-test.outputs.tools-url }}
 
-        matrix.version == 'stable-20221211' ||
+      - name: Check languages
+        run: |
+          expected_languages="csharp,java,swift,javascript"
+          actual_languages=$(jq -r '.languages | join(",")' "$RUNNER_TEMP"/config)
 
-        matrix.version == 'stable-20230418' ||
-
-        matrix.version == 'stable-v2.13.5' ||
-
-        matrix.version == 'stable-v2.14.6')
-      with:
-        python-version: '3.11'
-    - name: Check out repository
-      uses: actions/checkout@v4
-    - name: Prepare test
-      id: prepare-test
-      uses: ./.github/actions/prepare-test
-      with:
-        version: ${{ matrix.version }}
-        use-all-platform-bundle: 'false'
-    - name: Set environment variable for Swift enablement
-      if: runner.os != 'Windows' && matrix.version == '20221211'
-      shell: bash
-      run: echo "CODEQL_ENABLE_EXPERIMENTAL_FEATURES_SWIFT=true" >> $GITHUB_ENV
-    - uses: ./../action/init
-      with:
-        languages: C#,java-kotlin,swift,typescript
-        tools: ${{ steps.prepare-test.outputs.tools-url }}
-
-    - name: Check languages
-      run: |
-        expected_languages="csharp,java,swift,javascript"
-        actual_languages=$(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: $actual_languages."
-          exit 1
-        fi
+          if [ "$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/__multi-language-autodetect.yml

@@ -1,159 +1,175 @@
 # Warning: This file is generated automatically, and should not be modified.
 # Instead, please modify the template in the pr-checks directory and run:
-#     (cd pr-checks; pip install ruamel.yaml@0.17.31 && python3 sync.py)
+#     pr-checks/sync.sh
 # to regenerate this file.
 
 name: PR Check - Multi-language repository
 env:
   GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }}
   GO111MODULE: auto
-  CODEQL_EXTRACTOR_JAVA_AGENT_DISABLE_KOTLIN: 'true'
 on:
   push:
     branches:
-    - main
-    - releases/v*
+      - main
+      - releases/v*
   pull_request:
     types:
-    - opened
-    - synchronize
-    - reopened
-    - ready_for_review
-  workflow_dispatch: {}
+      - opened
+      - synchronize
+      - reopened
+      - ready_for_review
+  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' }}
+  group: ${{ github.workflow }}-${{ github.ref }}
 jobs:
   multi-language-autodetect:
     strategy:
+      fail-fast: false
       matrix:
         include:
-        - os: ubuntu-latest
-          version: stable-20221211
-        - os: macos-latest
-          version: stable-20221211
-        - os: ubuntu-latest
-          version: stable-20230418
-        - os: macos-latest
-          version: stable-20230418
-        - os: ubuntu-latest
-          version: stable-v2.13.5
-        - os: macos-latest
-          version: stable-v2.13.5
-        - os: ubuntu-latest
-          version: stable-v2.14.6
-        - os: macos-latest
-          version: stable-v2.14.6
-        - os: ubuntu-latest
-          version: default
-        - os: macos-latest
-          version: default
-        - os: ubuntu-latest
-          version: latest
-        - os: macos-latest
-          version: latest
-        - os: ubuntu-latest
-          version: nightly-latest
-        - os: macos-latest
-          version: nightly-latest
+          - os: macos-latest
+            version: stable-v2.17.6
+          - os: ubuntu-latest
+            version: stable-v2.17.6
+          - os: macos-latest
+            version: stable-v2.18.4
+          - os: ubuntu-latest
+            version: stable-v2.18.4
+          - os: macos-latest
+            version: stable-v2.19.4
+          - os: ubuntu-latest
+            version: stable-v2.19.4
+          - os: macos-latest
+            version: stable-v2.20.7
+          - os: ubuntu-latest
+            version: stable-v2.20.7
+          - os: macos-latest
+            version: stable-v2.21.4
+          - os: ubuntu-latest
+            version: stable-v2.21.4
+          - os: macos-latest
+            version: stable-v2.22.4
+          - os: ubuntu-latest
+            version: stable-v2.22.4
+          - os: macos-latest
+            version: default
+          - os: ubuntu-latest
+            version: default
+          - os: macos-latest
+            version: linked
+          - os: ubuntu-latest
+            version: linked
+          - os: macos-latest
+            version: nightly-latest
+          - os: ubuntu-latest
+            version: nightly-latest
     name: Multi-language repository
+    if: github.triggering_actor != 'dependabot[bot]'
     permissions:
       contents: read
-      security-events: write
+      security-events: read
     timeout-minutes: 45
     runs-on: ${{ matrix.os }}
     steps:
-    - name: Setup Python on MacOS
-      uses: actions/setup-python@v5
-      if: >-
-        matrix.os == 'macos-latest' && (
+      - name: Check out repository
+        uses: actions/checkout@v5
+      - 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 Go
+        uses: actions/setup-go@v6
+        with:
+          go-version: ${{ inputs.go-version || '>=1.21.0' }}
+          cache: false
+      - name: Use Xcode 16
+        if: runner.os == 'macOS' && matrix.version != 'nightly-latest'
+        run: sudo xcode-select -s "/Applications/Xcode_16.app"
 
-        matrix.version == 'stable-20221211' ||
+      - 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 }}
 
-        matrix.version == 'stable-20230418' ||
+      - name: Build code
+        run: ./build.sh
 
-        matrix.version == 'stable-v2.13.5' ||
+      - uses: ./../action/analyze
+        id: analysis
+        with:
+          upload-database: false
 
-        matrix.version == 'stable-v2.14.6')
-      with:
-        python-version: '3.11'
-    - name: Check out repository
-      uses: actions/checkout@v4
-    - name: Prepare test
-      id: prepare-test
-      uses: ./.github/actions/prepare-test
-      with:
-        version: ${{ matrix.version }}
-        use-all-platform-bundle: 'false'
-    - name: Set environment variable for Swift enablement
-      if: runner.os != 'Windows' && matrix.version == '20221211'
-      shell: bash
-      run: echo "CODEQL_ENABLE_EXPERIMENTAL_FEATURES_SWIFT=true" >> $GITHUB_ENV
-    - uses: ./../action/init
-      id: init
-      with:
-        db-location: ${{ runner.temp }}/customDbLocation
-        tools: ${{ steps.prepare-test.outputs.tools-url }}
+      - name: Check language autodetect for all languages excluding Swift
+        run: |
+          CPP_DB=${{ 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
 
-    - uses: ./../action/.github/actions/setup-swift
-      with:
-        codeql-path: ${{ steps.init.outputs.codeql-path }}
-
-    - name: Build code
-      shell: bash
-      run: ./build.sh
-
-    - uses: ./../action/analyze
-      id: analysis
-      with:
-        upload-database: false
-
-    - name: Check language autodetect for all languages excluding Swift
-      shell: bash
-      run: |
-        CPP_DB=${{ 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 == ${{ runner.temp }}/customDbLocation/* ]]; then
-          echo "Did not create a database for Ruby, or created it in the wrong location."
-          exit 1
-        fi
-
-    - name: Check language autodetect for Swift
-      if: >-
-        env.CODEQL_ENABLE_EXPERIMENTAL_FEATURES_SWIFT == 'true' ||
-            (runner.os != 'Windows' && matrix.version == 'nightly-latest')
-      shell: bash
-      run: |
-        SWIFT_DB=${{ fromJson(steps.analysis.outputs.db-locations).swift }}
-        if [[ ! -d $SWIFT_DB ]] || [[ ! $SWIFT_DB == ${{ runner.temp }}/customDbLocation/* ]]; then
-          echo "Did not create a database for Swift, or created it in the wrong location."
-          exit 1
-        fi
+      - name: Check language autodetect for Swift on macOS
+        if: runner.os == 'macOS'
+        run: |
+          SWIFT_DB=${{ 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 +1,78 @@
+# 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 - Overlay database init fallback
+env:
+  GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }}
+  GO111MODULE: auto
+on:
+  push:
+    branches:
+      - main
+      - releases/v*
+  pull_request:
+    types:
+      - opened
+      - synchronize
+      - reopened
+      - ready_for_review
+  schedule:
+    - cron: '0 5 * * *'
+  workflow_dispatch:
+    inputs: {}
+  workflow_call:
+    inputs: {}
+defaults:
+  run:
+    shell: bash
+concurrency:
+  cancel-in-progress: ${{ github.event_name == 'pull_request' }}
+  group: ${{ github.workflow }}-${{ 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@v5
+      - 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

@@ -1,116 +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:
-#     (cd pr-checks; pip install ruamel.yaml@0.17.31 && python3 sync.py)
+#     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
-  CODEQL_EXTRACTOR_JAVA_AGENT_DISABLE_KOTLIN: 'true'
 on:
   push:
     branches:
-    - main
-    - releases/v*
+      - main
+      - releases/v*
   pull_request:
     types:
-    - opened
-    - synchronize
-    - reopened
-    - ready_for_review
-  workflow_dispatch: {}
+      - opened
+      - synchronize
+      - reopened
+      - ready_for_review
+  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' }}
+  group: ${{ github.workflow }}-${{ github.ref }}
 jobs:
   packaging-codescanning-config-inputs-js:
     strategy:
+      fail-fast: false
       matrix:
         include:
-        - os: ubuntu-latest
-          version: latest
-        - os: macos-latest
-          version: latest
-        - os: windows-latest
-          version: latest
-        - os: ubuntu-latest
-          version: default
-        - os: macos-latest
-          version: default
-        - os: windows-latest
-          version: default
-        - os: ubuntu-latest
-          version: nightly-latest
-        - os: macos-latest
-          version: nightly-latest
-        - os: windows-latest
-          version: nightly-latest
+          - os: ubuntu-latest
+            version: linked
+          - os: macos-latest
+            version: linked
+          - os: windows-latest
+            version: linked
+          - os: ubuntu-latest
+            version: default
+          - os: macos-latest
+            version: default
+          - os: windows-latest
+            version: default
+          - os: ubuntu-latest
+            version: nightly-latest
+          - os: macos-latest
+            version: nightly-latest
+          - os: windows-latest
+            version: nightly-latest
     name: 'Packaging: Config and input passed to the CLI'
+    if: github.triggering_actor != 'dependabot[bot]'
     permissions:
       contents: read
-      security-events: write
+      security-events: read
     timeout-minutes: 45
     runs-on: ${{ matrix.os }}
     steps:
-    - name: Setup Python on MacOS
-      uses: actions/setup-python@v5
-      if: >-
-        matrix.os == 'macos-latest' && (
+      - name: Check out repository
+        uses: actions/checkout@v5
+      - name: Install Node.js
+        uses: actions/setup-node@v5
+        with:
+          node-version: 20.x
+          cache: npm
+      - 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: Install Go
+        uses: actions/setup-go@v6
+        with:
+          go-version: ${{ inputs.go-version || '>=1.21.0' }}
+          cache: false
+      - 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
 
-        matrix.version == 'stable-20221211' ||
+      - 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
 
-        matrix.version == 'stable-20230418' ||
+      - 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"
 
-        matrix.version == 'stable-v2.13.5' ||
-
-        matrix.version == 'stable-v2.14.6')
-      with:
-        python-version: '3.11'
-    - name: Check out repository
-      uses: actions/checkout@v4
-    - name: Prepare test
-      id: prepare-test
-      uses: ./.github/actions/prepare-test
-      with:
-        version: ${{ matrix.version }}
-        use-all-platform-bundle: 'false'
-    - name: Set environment variable for Swift enablement
-      if: runner.os != 'Windows' && matrix.version == '20221211'
-      shell: bash
-      run: echo "CODEQL_ENABLE_EXPERIMENTAL_FEATURES_SWIFT=true" >> $GITHUB_ENV
-    - 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
-      shell: bash
-      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: ${{ runner.temp }}/results/javascript.sarif
-        queries-run: 
-          javascript/example/empty-or-one-block,javascript/example/empty-or-one-block,javascript/example/other-query-block,javascript/example/two-block
-        queries-not-run: foo,bar
-
-    - name: Assert Results
-      shell: bash
-      run: |
-        cd "$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 '$EXPECTED_RULES'."
-          exit 1
-        fi
+          # use tr to replace newlines with spaces and xargs to trim leading and trailing whitespace
+          RULES="$(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

@@ -1,116 +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:
-#     (cd pr-checks; pip install ruamel.yaml@0.17.31 && python3 sync.py)
+#     pr-checks/sync.sh
 # to regenerate this file.
 
 name: 'PR Check - Packaging: Config and input'
 env:
   GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }}
   GO111MODULE: auto
-  CODEQL_EXTRACTOR_JAVA_AGENT_DISABLE_KOTLIN: 'true'
 on:
   push:
     branches:
-    - main
-    - releases/v*
+      - main
+      - releases/v*
   pull_request:
     types:
-    - opened
-    - synchronize
-    - reopened
-    - ready_for_review
-  workflow_dispatch: {}
+      - opened
+      - synchronize
+      - reopened
+      - ready_for_review
+  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' }}
+  group: ${{ github.workflow }}-${{ github.ref }}
 jobs:
   packaging-config-inputs-js:
     strategy:
+      fail-fast: false
       matrix:
         include:
-        - os: ubuntu-latest
-          version: latest
-        - os: macos-latest
-          version: latest
-        - os: windows-latest
-          version: latest
-        - os: ubuntu-latest
-          version: default
-        - os: macos-latest
-          version: default
-        - os: windows-latest
-          version: default
-        - os: ubuntu-latest
-          version: nightly-latest
-        - os: macos-latest
-          version: nightly-latest
-        - os: windows-latest
-          version: nightly-latest
+          - os: ubuntu-latest
+            version: linked
+          - os: macos-latest
+            version: linked
+          - os: windows-latest
+            version: linked
+          - os: ubuntu-latest
+            version: default
+          - os: macos-latest
+            version: default
+          - os: windows-latest
+            version: default
+          - os: ubuntu-latest
+            version: nightly-latest
+          - os: macos-latest
+            version: nightly-latest
+          - os: windows-latest
+            version: nightly-latest
     name: 'Packaging: Config and input'
+    if: github.triggering_actor != 'dependabot[bot]'
     permissions:
       contents: read
-      security-events: write
+      security-events: read
     timeout-minutes: 45
     runs-on: ${{ matrix.os }}
     steps:
-    - name: Setup Python on MacOS
-      uses: actions/setup-python@v5
-      if: >-
-        matrix.os == 'macos-latest' && (
+      - name: Check out repository
+        uses: actions/checkout@v5
+      - name: Install Node.js
+        uses: actions/setup-node@v5
+        with:
+          node-version: 20.x
+          cache: npm
+      - 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: Install Go
+        uses: actions/setup-go@v6
+        with:
+          go-version: ${{ inputs.go-version || '>=1.21.0' }}
+          cache: false
+      - 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
 
-        matrix.version == 'stable-20221211' ||
+      - 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
 
-        matrix.version == 'stable-20230418' ||
+      - 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"
 
-        matrix.version == 'stable-v2.13.5' ||
-
-        matrix.version == 'stable-v2.14.6')
-      with:
-        python-version: '3.11'
-    - name: Check out repository
-      uses: actions/checkout@v4
-    - name: Prepare test
-      id: prepare-test
-      uses: ./.github/actions/prepare-test
-      with:
-        version: ${{ matrix.version }}
-        use-all-platform-bundle: 'false'
-    - name: Set environment variable for Swift enablement
-      if: runner.os != 'Windows' && matrix.version == '20221211'
-      shell: bash
-      run: echo "CODEQL_ENABLE_EXPERIMENTAL_FEATURES_SWIFT=true" >> $GITHUB_ENV
-    - 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
-      shell: bash
-      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: ${{ runner.temp }}/results/javascript.sarif
-        queries-run: 
-          javascript/example/empty-or-one-block,javascript/example/empty-or-one-block,javascript/example/other-query-block,javascript/example/two-block
-        queries-not-run: foo,bar
-
-    - name: Assert Results
-      shell: bash
-      run: |
-        cd "$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 '$EXPECTED_RULES'."
-          exit 1
-        fi
+          # use tr to replace newlines with spaces and xargs to trim leading and trailing whitespace
+          RULES="$(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

@@ -1,115 +1,130 @@
 # Warning: This file is generated automatically, and should not be modified.
 # Instead, please modify the template in the pr-checks directory and run:
-#     (cd pr-checks; pip install ruamel.yaml@0.17.31 && python3 sync.py)
+#     pr-checks/sync.sh
 # to regenerate this file.
 
 name: 'PR Check - Packaging: Config file'
 env:
   GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }}
   GO111MODULE: auto
-  CODEQL_EXTRACTOR_JAVA_AGENT_DISABLE_KOTLIN: 'true'
 on:
   push:
     branches:
-    - main
-    - releases/v*
+      - main
+      - releases/v*
   pull_request:
     types:
-    - opened
-    - synchronize
-    - reopened
-    - ready_for_review
-  workflow_dispatch: {}
+      - opened
+      - synchronize
+      - reopened
+      - ready_for_review
+  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' }}
+  group: ${{ github.workflow }}-${{ github.ref }}
 jobs:
   packaging-config-js:
     strategy:
+      fail-fast: false
       matrix:
         include:
-        - os: ubuntu-latest
-          version: latest
-        - os: macos-latest
-          version: latest
-        - os: windows-latest
-          version: latest
-        - os: ubuntu-latest
-          version: default
-        - os: macos-latest
-          version: default
-        - os: windows-latest
-          version: default
-        - os: ubuntu-latest
-          version: nightly-latest
-        - os: macos-latest
-          version: nightly-latest
-        - os: windows-latest
-          version: nightly-latest
+          - os: ubuntu-latest
+            version: linked
+          - os: macos-latest
+            version: linked
+          - os: windows-latest
+            version: linked
+          - os: ubuntu-latest
+            version: default
+          - os: macos-latest
+            version: default
+          - os: windows-latest
+            version: default
+          - os: ubuntu-latest
+            version: nightly-latest
+          - os: macos-latest
+            version: nightly-latest
+          - os: windows-latest
+            version: nightly-latest
     name: 'Packaging: Config file'
+    if: github.triggering_actor != 'dependabot[bot]'
     permissions:
       contents: read
-      security-events: write
+      security-events: read
     timeout-minutes: 45
     runs-on: ${{ matrix.os }}
     steps:
-    - name: Setup Python on MacOS
-      uses: actions/setup-python@v5
-      if: >-
-        matrix.os == 'macos-latest' && (
+      - name: Check out repository
+        uses: actions/checkout@v5
+      - name: Install Node.js
+        uses: actions/setup-node@v5
+        with:
+          node-version: 20.x
+          cache: npm
+      - 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: Install Go
+        uses: actions/setup-go@v6
+        with:
+          go-version: ${{ inputs.go-version || '>=1.21.0' }}
+          cache: false
+      - 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
 
-        matrix.version == 'stable-20221211' ||
+      - 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
 
-        matrix.version == 'stable-20230418' ||
+      - 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"
 
-        matrix.version == 'stable-v2.13.5' ||
-
-        matrix.version == 'stable-v2.14.6')
-      with:
-        python-version: '3.11'
-    - name: Check out repository
-      uses: actions/checkout@v4
-    - name: Prepare test
-      id: prepare-test
-      uses: ./.github/actions/prepare-test
-      with:
-        version: ${{ matrix.version }}
-        use-all-platform-bundle: 'false'
-    - name: Set environment variable for Swift enablement
-      if: runner.os != 'Windows' && matrix.version == '20221211'
-      shell: bash
-      run: echo "CODEQL_ENABLE_EXPERIMENTAL_FEATURES_SWIFT=true" >> $GITHUB_ENV
-    - uses: ./../action/init
-      with:
-        config-file: .github/codeql/codeql-config-packaging.yml
-        languages: javascript
-        tools: ${{ steps.prepare-test.outputs.tools-url }}
-    - name: Build code
-      shell: bash
-      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: ${{ runner.temp }}/results/javascript.sarif
-        queries-run: 
-          javascript/example/empty-or-one-block,javascript/example/empty-or-one-block,javascript/example/other-query-block,javascript/example/two-block
-        queries-not-run: foo,bar
-
-    - name: Assert Results
-      shell: bash
-      run: |
-        cd "$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 '$EXPECTED_RULES'."
-          exit 1
-        fi
+          # use tr to replace newlines with spaces and xargs to trim leading and trailing whitespace
+          RULES="$(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

@@ -1,115 +1,130 @@
 # Warning: This file is generated automatically, and should not be modified.
 # Instead, please modify the template in the pr-checks directory and run:
-#     (cd pr-checks; pip install ruamel.yaml@0.17.31 && python3 sync.py)
+#     pr-checks/sync.sh
 # to regenerate this file.
 
 name: 'PR Check - Packaging: Action input'
 env:
   GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }}
   GO111MODULE: auto
-  CODEQL_EXTRACTOR_JAVA_AGENT_DISABLE_KOTLIN: 'true'
 on:
   push:
     branches:
-    - main
-    - releases/v*
+      - main
+      - releases/v*
   pull_request:
     types:
-    - opened
-    - synchronize
-    - reopened
-    - ready_for_review
-  workflow_dispatch: {}
+      - opened
+      - synchronize
+      - reopened
+      - ready_for_review
+  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' }}
+  group: ${{ github.workflow }}-${{ github.ref }}
 jobs:
   packaging-inputs-js:
     strategy:
+      fail-fast: false
       matrix:
         include:
-        - os: ubuntu-latest
-          version: latest
-        - os: macos-latest
-          version: latest
-        - os: windows-latest
-          version: latest
-        - os: ubuntu-latest
-          version: default
-        - os: macos-latest
-          version: default
-        - os: windows-latest
-          version: default
-        - os: ubuntu-latest
-          version: nightly-latest
-        - os: macos-latest
-          version: nightly-latest
-        - os: windows-latest
-          version: nightly-latest
+          - os: ubuntu-latest
+            version: linked
+          - os: macos-latest
+            version: linked
+          - os: windows-latest
+            version: linked
+          - os: ubuntu-latest
+            version: default
+          - os: macos-latest
+            version: default
+          - os: windows-latest
+            version: default
+          - os: ubuntu-latest
+            version: nightly-latest
+          - os: macos-latest
+            version: nightly-latest
+          - os: windows-latest
+            version: nightly-latest
     name: 'Packaging: Action input'
+    if: github.triggering_actor != 'dependabot[bot]'
     permissions:
       contents: read
-      security-events: write
+      security-events: read
     timeout-minutes: 45
     runs-on: ${{ matrix.os }}
     steps:
-    - name: Setup Python on MacOS
-      uses: actions/setup-python@v5
-      if: >-
-        matrix.os == 'macos-latest' && (
+      - name: Check out repository
+        uses: actions/checkout@v5
+      - name: Install Node.js
+        uses: actions/setup-node@v5
+        with:
+          node-version: 20.x
+          cache: npm
+      - 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: Install Go
+        uses: actions/setup-go@v6
+        with:
+          go-version: ${{ inputs.go-version || '>=1.21.0' }}
+          cache: false
+      - 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
 
-        matrix.version == 'stable-20221211' ||
+      - 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
 
-        matrix.version == 'stable-20230418' ||
+      - 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"
 
-        matrix.version == 'stable-v2.13.5' ||
-
-        matrix.version == 'stable-v2.14.6')
-      with:
-        python-version: '3.11'
-    - name: Check out repository
-      uses: actions/checkout@v4
-    - name: Prepare test
-      id: prepare-test
-      uses: ./.github/actions/prepare-test
-      with:
-        version: ${{ matrix.version }}
-        use-all-platform-bundle: 'false'
-    - name: Set environment variable for Swift enablement
-      if: runner.os != 'Windows' && matrix.version == '20221211'
-      shell: bash
-      run: echo "CODEQL_ENABLE_EXPERIMENTAL_FEATURES_SWIFT=true" >> $GITHUB_ENV
-    - 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
-      shell: bash
-      run: ./build.sh
-    - uses: ./../action/analyze
-      with:
-        output: ${{ runner.temp }}/results
-
-    - name: Check results
-      uses: ./../action/.github/actions/check-sarif
-      with:
-        sarif-file: ${{ runner.temp }}/results/javascript.sarif
-        queries-run: 
-          javascript/example/empty-or-one-block,javascript/example/empty-or-one-block,javascript/example/other-query-block,javascript/example/two-block
-        queries-not-run: foo,bar
-
-    - name: Assert Results
-      shell: bash
-      run: |
-        cd "$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 '$EXPECTED_RULES'."
-          exit 1
-        fi
+          # use tr to replace newlines with spaces and xargs to trim leading and trailing whitespace
+          RULES="$(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/__quality-queries.yml

@@ -0,0 +1,175 @@
+# 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 - Quality queries input
+env:
+  GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }}
+  GO111MODULE: auto
+on:
+  push:
+    branches:
+      - main
+      - releases/v*
+  pull_request:
+    types:
+      - opened
+      - synchronize
+      - reopened
+      - ready_for_review
+  schedule:
+    - cron: '0 5 * * *'
+  workflow_dispatch:
+    inputs: {}
+  workflow_call:
+    inputs: {}
+defaults:
+  run:
+    shell: bash
+concurrency:
+  cancel-in-progress: ${{ github.event_name == 'pull_request' }}
+  group: ${{ github.workflow }}-${{ github.ref }}
+jobs:
+  quality-queries:
+    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: macos-latest
+            version: linked
+            analysis-kinds: code-scanning
+          - os: macos-latest
+            version: linked
+            analysis-kinds: code-quality
+          - os: macos-latest
+            version: linked
+            analysis-kinds: code-scanning,code-quality
+          - os: windows-latest
+            version: linked
+            analysis-kinds: code-scanning
+          - os: windows-latest
+            version: linked
+            analysis-kinds: code-quality
+          - os: windows-latest
+            version: linked
+            analysis-kinds: code-scanning,code-quality
+          - 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: macos-latest
+            version: nightly-latest
+            analysis-kinds: code-scanning
+          - os: macos-latest
+            version: nightly-latest
+            analysis-kinds: code-quality
+          - os: macos-latest
+            version: nightly-latest
+            analysis-kinds: code-scanning,code-quality
+          - os: windows-latest
+            version: nightly-latest
+            analysis-kinds: code-scanning
+          - os: windows-latest
+            version: nightly-latest
+            analysis-kinds: code-quality
+          - os: windows-latest
+            version: nightly-latest
+            analysis-kinds: code-scanning,code-quality
+    name: Quality queries 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@v5
+      - 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: ${{ runner.temp }}/results
+          upload-database: false
+      - name: Upload security SARIF
+        if: contains(matrix.analysis-kinds, 'code-scanning')
+        uses: actions/upload-artifact@v4
+        with:
+          name: |
+            quality-queries-${{ matrix.os }}-${{ matrix.version }}-${{ matrix.analysis-kinds }}.sarif.json
+          path: ${{ runner.temp }}/results/javascript.sarif
+          retention-days: 7
+      - name: Upload quality SARIF
+        if: contains(matrix.analysis-kinds, 'code-quality')
+        uses: actions/upload-artifact@v4
+        with:
+          name: |
+            quality-queries-${{ matrix.os }}-${{ matrix.version }}-${{ matrix.analysis-kinds }}.quality.sarif.json
+          path: ${{ runner.temp }}/results/javascript.quality.sarif
+          retention-days: 7
+      - name: Check quality query does not appear in security SARIF
+        if: contains(matrix.analysis-kinds, 'code-scanning')
+        uses: actions/github-script@v8
+        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@v8
+        env:
+          SARIF_PATH: ${{ runner.temp }}/results/javascript.quality.sarif
+          EXPECT_PRESENT: 'true'
+        with:
+          script: ${{ env.CHECK_SCRIPT }}
+    env:
+      CHECK_SCRIPT: |
+        const fs = require('fs');
+
+        const sarif = JSON.parse(fs.readFileSync(process.env['SARIF_PATH'], 'utf8'));
+        const expectPresent = JSON.parse(process.env['EXPECT_PRESENT']);
+        const run = sarif.runs[0];
+        const extensions = run.tool.extensions;
+
+        if (extensions === undefined) {
+          core.setFailed('`extensions` property not found in the SARIF run property bag.');
+        }
+
+        // ID of a query we want to check the presence for
+        const targetId = 'js/regex/always-matches';
+        const found = extensions.find(extension => extension.rules && extension.rules.find(rule => rule.id === targetId));
+
+        if (found && expectPresent) {
+          console.log(`Found rule with id '${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/__remote-config.yml

@@ -1,114 +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:
-#     (cd pr-checks; pip install ruamel.yaml@0.17.31 && python3 sync.py)
+#     pr-checks/sync.sh
 # to regenerate this file.
 
 name: PR Check - Remote config file
 env:
   GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }}
   GO111MODULE: auto
-  CODEQL_EXTRACTOR_JAVA_AGENT_DISABLE_KOTLIN: 'true'
 on:
   push:
     branches:
-    - main
-    - releases/v*
+      - main
+      - releases/v*
   pull_request:
     types:
-    - opened
-    - synchronize
-    - reopened
-    - ready_for_review
-  workflow_dispatch: {}
+      - opened
+      - synchronize
+      - reopened
+      - ready_for_review
+  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' }}
+  group: ${{ github.workflow }}-${{ github.ref }}
 jobs:
   remote-config:
     strategy:
+      fail-fast: false
       matrix:
         include:
-        - os: ubuntu-latest
-          version: stable-20221211
-        - os: macos-latest
-          version: stable-20221211
-        - os: windows-latest
-          version: stable-20221211
-        - os: ubuntu-latest
-          version: stable-20230418
-        - os: macos-latest
-          version: stable-20230418
-        - os: windows-latest
-          version: stable-20230418
-        - os: ubuntu-latest
-          version: stable-v2.13.5
-        - os: macos-latest
-          version: stable-v2.13.5
-        - os: windows-latest
-          version: stable-v2.13.5
-        - os: ubuntu-latest
-          version: stable-v2.14.6
-        - os: macos-latest
-          version: stable-v2.14.6
-        - os: windows-latest
-          version: stable-v2.14.6
-        - os: ubuntu-latest
-          version: default
-        - os: macos-latest
-          version: default
-        - os: windows-latest
-          version: default
-        - os: ubuntu-latest
-          version: latest
-        - os: macos-latest
-          version: latest
-        - os: windows-latest
-          version: latest
-        - os: ubuntu-latest
-          version: nightly-latest
-        - os: macos-latest
-          version: nightly-latest
-        - os: windows-latest
-          version: nightly-latest
+          - 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: write
+      security-events: read
     timeout-minutes: 45
     runs-on: ${{ matrix.os }}
     steps:
-    - name: Setup Python on MacOS
-      uses: actions/setup-python@v5
-      if: >-
-        matrix.os == 'macos-latest' && (
-
-        matrix.version == 'stable-20221211' ||
-
-        matrix.version == 'stable-20230418' ||
-
-        matrix.version == 'stable-v2.13.5' ||
-
-        matrix.version == 'stable-v2.14.6')
-      with:
-        python-version: '3.11'
-    - name: Check out repository
-      uses: actions/checkout@v4
-    - name: Prepare test
-      id: prepare-test
-      uses: ./.github/actions/prepare-test
-      with:
-        version: ${{ matrix.version }}
-        use-all-platform-bundle: 'false'
-    - name: Set environment variable for Swift enablement
-      if: runner.os != 'Windows' && matrix.version == '20221211'
-      shell: bash
-      run: echo "CODEQL_ENABLE_EXPERIMENTAL_FEATURES_SWIFT=true" >> $GITHUB_ENV
-    - 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
-      shell: bash
-      run: ./build.sh
-    - uses: ./../action/analyze
+      - name: Check out repository
+        uses: actions/checkout@v5
+      - 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 Go
+        uses: actions/setup-go@v6
+        with:
+          go-version: ${{ inputs.go-version || '>=1.21.0' }}
+          cache: false
+      - 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

@@ -1,113 +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:
-#     (cd pr-checks; pip install ruamel.yaml@0.17.31 && python3 sync.py)
+#     pr-checks/sync.sh
 # to regenerate this file.
 
 name: PR Check - Resolve environment
 env:
   GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }}
   GO111MODULE: auto
-  CODEQL_EXTRACTOR_JAVA_AGENT_DISABLE_KOTLIN: 'true'
 on:
   push:
     branches:
-    - main
-    - releases/v*
+      - main
+      - releases/v*
   pull_request:
     types:
-    - opened
-    - synchronize
-    - reopened
-    - ready_for_review
-  workflow_dispatch: {}
+      - opened
+      - synchronize
+      - reopened
+      - ready_for_review
+  schedule:
+    - cron: '0 5 * * *'
+  workflow_dispatch:
+    inputs: {}
+  workflow_call:
+    inputs: {}
+defaults:
+  run:
+    shell: bash
+concurrency:
+  cancel-in-progress: ${{ github.event_name == 'pull_request' }}
+  group: ${{ github.workflow }}-${{ github.ref }}
 jobs:
   resolve-environment-action:
     strategy:
+      fail-fast: false
       matrix:
         include:
-        - os: ubuntu-latest
-          version: stable-v2.13.4
-        - os: macos-latest
-          version: stable-v2.13.4
-        - os: windows-latest
-          version: stable-v2.13.4
-        - os: ubuntu-latest
-          version: default
-        - os: macos-latest
-          version: default
-        - os: windows-latest
-          version: default
-        - os: ubuntu-latest
-          version: latest
-        - os: macos-latest
-          version: latest
-        - os: windows-latest
-          version: latest
-        - os: ubuntu-latest
-          version: nightly-latest
-        - os: macos-latest
-          version: nightly-latest
-        - os: windows-latest
-          version: nightly-latest
+          - os: ubuntu-latest
+            version: default
+          - os: macos-latest
+            version: default
+          - os: windows-latest
+            version: default
+          - os: ubuntu-latest
+            version: linked
+          - os: macos-latest
+            version: linked
+          - os: windows-latest
+            version: linked
+          - os: ubuntu-latest
+            version: nightly-latest
+          - os: macos-latest
+            version: nightly-latest
+          - os: windows-latest
+            version: nightly-latest
     name: Resolve environment
+    if: github.triggering_actor != 'dependabot[bot]'
     permissions:
       contents: read
-      security-events: write
+      security-events: read
     timeout-minutes: 45
     runs-on: ${{ matrix.os }}
     steps:
-    - name: Setup Python on MacOS
-      uses: actions/setup-python@v5
-      if: >-
-        matrix.os == 'macos-latest' && (
+      - name: Check out repository
+        uses: actions/checkout@v5
+      - 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 }}
 
-        matrix.version == 'stable-20221211' ||
+      - name: Resolve environment for Go
+        uses: ./../action/resolve-environment
+        id: resolve-environment-go
+        with:
+          language: go
 
-        matrix.version == 'stable-20230418' ||
+      - name: Fail if Go configuration missing
+        if: (!fromJSON(steps.resolve-environment-go.outputs.environment).configuration.go)
+        run: exit 1
 
-        matrix.version == 'stable-v2.13.5' ||
+      - name: Resolve environment for JavaScript/TypeScript
+        uses: ./../action/resolve-environment
+        id: resolve-environment-js
+        with:
+          language: javascript-typescript
 
-        matrix.version == 'stable-v2.14.6')
-      with:
-        python-version: '3.11'
-    - name: Check out repository
-      uses: actions/checkout@v4
-    - name: Prepare test
-      id: prepare-test
-      uses: ./.github/actions/prepare-test
-      with:
-        version: ${{ matrix.version }}
-        use-all-platform-bundle: 'false'
-    - name: Set environment variable for Swift enablement
-      if: runner.os != 'Windows' && matrix.version == '20221211'
-      shell: bash
-      run: echo "CODEQL_ENABLE_EXPERIMENTAL_FEATURES_SWIFT=true" >> $GITHUB_ENV
-    - uses: ./../action/init
-      with:
-        languages: ${{ matrix.version == 'stable-v2.13.4' && 'go' || '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
-      if: matrix.version != 'stable-v2.13.4'
-      uses: ./../action/resolve-environment
-      id: resolve-environment-js
-      with:
-        language: javascript-typescript
-
-    - name: Fail if JavaScript/TypeScript configuration present
-      if: matrix.version != 'stable-v2.13.4' && 
-        fromJSON(steps.resolve-environment-js.outputs.environment).configuration.javascript
-      run: exit 1
+      - 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

@@ -1,84 +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:
-#     (cd pr-checks; pip install ruamel.yaml@0.17.31 && python3 sync.py)
+#     pr-checks/sync.sh
 # to regenerate this file.
 
 name: PR Check - RuboCop multi-language
 env:
   GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }}
   GO111MODULE: auto
-  CODEQL_EXTRACTOR_JAVA_AGENT_DISABLE_KOTLIN: 'true'
 on:
   push:
     branches:
-    - main
-    - releases/v*
+      - main
+      - releases/v*
   pull_request:
     types:
-    - opened
-    - synchronize
-    - reopened
-    - ready_for_review
-  workflow_dispatch: {}
+      - opened
+      - synchronize
+      - reopened
+      - ready_for_review
+  schedule:
+    - cron: '0 5 * * *'
+  workflow_dispatch:
+    inputs: {}
+  workflow_call:
+    inputs: {}
+defaults:
+  run:
+    shell: bash
+concurrency:
+  cancel-in-progress: ${{ github.event_name == 'pull_request' }}
+  group: ${{ github.workflow }}-${{ github.ref }}
 jobs:
   rubocop-multi-language:
     strategy:
+      fail-fast: false
       matrix:
         include:
-        - os: ubuntu-latest
-          version: default
+          - os: ubuntu-latest
+            version: default
     name: RuboCop multi-language
+    if: github.triggering_actor != 'dependabot[bot]'
     permissions:
       contents: read
-      security-events: write
+      security-events: read
     timeout-minutes: 45
     runs-on: ${{ matrix.os }}
     steps:
-    - name: Setup Python on MacOS
-      uses: actions/setup-python@v5
-      if: >-
-        matrix.os == 'macos-latest' && (
-
-        matrix.version == 'stable-20221211' ||
-
-        matrix.version == 'stable-20230418' ||
-
-        matrix.version == 'stable-v2.13.5' ||
-
-        matrix.version == 'stable-v2.14.6')
-      with:
-        python-version: '3.11'
-    - name: Check out repository
-      uses: actions/checkout@v4
-    - name: Prepare test
-      id: prepare-test
-      uses: ./.github/actions/prepare-test
-      with:
-        version: ${{ matrix.version }}
-        use-all-platform-bundle: 'false'
-    - name: Set environment variable for Swift enablement
-      if: runner.os != 'Windows' && matrix.version == '20221211'
-      shell: bash
-      run: echo "CODEQL_ENABLE_EXPERIMENTAL_FEATURES_SWIFT=true" >> $GITHUB_ENV
-    - name: Set up Ruby
-      uses: ruby/setup-ruby@v1
-      with:
-        ruby-version: 2.6
-    - name: Install Code Scanning integration
-      shell: bash
-      run: bundle add code-scanning-rubocop --version 0.3.0 --skip-install
-    - name: Install dependencies
-      shell: bash
-      run: bundle install
-    - name: RuboCop run
-      shell: bash
-      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
+      - name: Check out repository
+        uses: actions/checkout@v5
+      - 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@0481980f17b760ef6bca5e8c55809102a0af1e5a # v1.263.0
+        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

@@ -1,90 +1,84 @@
 # Warning: This file is generated automatically, and should not be modified.
 # Instead, please modify the template in the pr-checks directory and run:
-#     (cd pr-checks; pip install ruamel.yaml@0.17.31 && python3 sync.py)
+#     pr-checks/sync.sh
 # to regenerate this file.
 
 name: PR Check - Ruby analysis
 env:
   GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }}
   GO111MODULE: auto
-  CODEQL_EXTRACTOR_JAVA_AGENT_DISABLE_KOTLIN: 'true'
 on:
   push:
     branches:
-    - main
-    - releases/v*
+      - main
+      - releases/v*
   pull_request:
     types:
-    - opened
-    - synchronize
-    - reopened
-    - ready_for_review
-  workflow_dispatch: {}
+      - opened
+      - synchronize
+      - reopened
+      - ready_for_review
+  schedule:
+    - cron: '0 5 * * *'
+  workflow_dispatch:
+    inputs: {}
+  workflow_call:
+    inputs: {}
+defaults:
+  run:
+    shell: bash
+concurrency:
+  cancel-in-progress: ${{ github.event_name == 'pull_request' }}
+  group: ${{ github.workflow }}-${{ github.ref }}
 jobs:
   ruby:
     strategy:
+      fail-fast: false
       matrix:
         include:
-        - os: ubuntu-latest
-          version: latest
-        - os: macos-latest
-          version: latest
-        - os: ubuntu-latest
-          version: default
-        - os: macos-latest
-          version: default
-        - os: ubuntu-latest
-          version: nightly-latest
-        - os: macos-latest
-          version: nightly-latest
+          - 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: write
+      security-events: read
     timeout-minutes: 45
     runs-on: ${{ matrix.os }}
     steps:
-    - name: Setup Python on MacOS
-      uses: actions/setup-python@v5
-      if: >-
-        matrix.os == 'macos-latest' && (
-
-        matrix.version == 'stable-20221211' ||
-
-        matrix.version == 'stable-20230418' ||
-
-        matrix.version == 'stable-v2.13.5' ||
-
-        matrix.version == 'stable-v2.14.6')
-      with:
-        python-version: '3.11'
-    - name: Check out repository
-      uses: actions/checkout@v4
-    - name: Prepare test
-      id: prepare-test
-      uses: ./.github/actions/prepare-test
-      with:
-        version: ${{ matrix.version }}
-        use-all-platform-bundle: 'false'
-    - name: Set environment variable for Swift enablement
-      if: runner.os != 'Windows' && matrix.version == '20221211'
-      shell: bash
-      run: echo "CODEQL_ENABLE_EXPERIMENTAL_FEATURES_SWIFT=true" >> $GITHUB_ENV
-    - uses: ./../action/init
-      with:
-        languages: ruby
-        tools: ${{ steps.prepare-test.outputs.tools-url }}
-    - uses: ./../action/analyze
-      id: analysis
-      with:
-        upload-database: false
-    - name: Check database
-      shell: bash
-      run: |
-        RUBY_DB="${{ fromJson(steps.analysis.outputs.db-locations).ruby }}"
-        if [[ ! -d "$RUBY_DB" ]]; then
-          echo "Did not create a database for Ruby."
-          exit 1
-        fi
+      - name: Check out repository
+        uses: actions/checkout@v5
+      - 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 +1,82 @@
+# 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 - Rust analysis
+env:
+  GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }}
+  GO111MODULE: auto
+on:
+  push:
+    branches:
+      - main
+      - releases/v*
+  pull_request:
+    types:
+      - opened
+      - synchronize
+      - reopened
+      - ready_for_review
+  schedule:
+    - cron: '0 5 * * *'
+  workflow_dispatch:
+    inputs: {}
+  workflow_call:
+    inputs: {}
+defaults:
+  run:
+    shell: bash
+concurrency:
+  cancel-in-progress: ${{ github.event_name == 'pull_request' }}
+  group: ${{ github.workflow }}-${{ github.ref }}
+jobs:
+  rust:
+    strategy:
+      fail-fast: false
+      matrix:
+        include:
+          - os: ubuntu-latest
+            version: stable-v2.19.3
+          - 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@v5
+      - 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/__scaling-reserved-ram.yml

@@ -1,109 +0,0 @@
-# Warning: This file is generated automatically, and should not be modified.
-# Instead, please modify the template in the pr-checks directory and run:
-#     (cd pr-checks; pip install ruamel.yaml@0.17.31 && python3 sync.py)
-# to regenerate this file.
-
-name: PR Check - Scaling reserved RAM
-env:
-  GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }}
-  GO111MODULE: auto
-  CODEQL_EXTRACTOR_JAVA_AGENT_DISABLE_KOTLIN: 'true'
-on:
-  push:
-    branches:
-    - main
-    - releases/v*
-  pull_request:
-    types:
-    - opened
-    - synchronize
-    - reopened
-    - ready_for_review
-  workflow_dispatch: {}
-jobs:
-  scaling-reserved-ram:
-    strategy:
-      matrix:
-        include:
-        - os: ubuntu-latest
-          version: stable-20221211
-        - os: macos-latest
-          version: stable-20221211
-        - os: ubuntu-latest
-          version: stable-20230418
-        - os: macos-latest
-          version: stable-20230418
-        - os: ubuntu-latest
-          version: stable-v2.13.5
-        - os: macos-latest
-          version: stable-v2.13.5
-        - os: ubuntu-latest
-          version: stable-v2.14.6
-        - os: macos-latest
-          version: stable-v2.14.6
-        - os: ubuntu-latest
-          version: default
-        - os: macos-latest
-          version: default
-        - os: ubuntu-latest
-          version: latest
-        - os: macos-latest
-          version: latest
-        - os: ubuntu-latest
-          version: nightly-latest
-        - os: macos-latest
-          version: nightly-latest
-    name: Scaling reserved RAM
-    permissions:
-      contents: read
-      security-events: write
-    timeout-minutes: 45
-    runs-on: ${{ matrix.os }}
-    steps:
-    - name: Setup Python on MacOS
-      uses: actions/setup-python@v5
-      if: >-
-        matrix.os == 'macos-latest' && (
-
-        matrix.version == 'stable-20221211' ||
-
-        matrix.version == 'stable-20230418' ||
-
-        matrix.version == 'stable-v2.13.5' ||
-
-        matrix.version == 'stable-v2.14.6')
-      with:
-        python-version: '3.11'
-    - name: Check out repository
-      uses: actions/checkout@v4
-    - name: Prepare test
-      id: prepare-test
-      uses: ./.github/actions/prepare-test
-      with:
-        version: ${{ matrix.version }}
-        use-all-platform-bundle: 'false'
-    - name: Set environment variable for Swift enablement
-      if: runner.os != 'Windows' && matrix.version == '20221211'
-      shell: bash
-      run: echo "CODEQL_ENABLE_EXPERIMENTAL_FEATURES_SWIFT=true" >> $GITHUB_ENV
-    - uses: ./../action/init
-      id: init
-      with:
-        db-location: ${{ runner.temp }}/customDbLocation
-        tools: ${{ steps.prepare-test.outputs.tools-url }}
-
-    - uses: ./../action/.github/actions/setup-swift
-      with:
-        codeql-path: ${{ steps.init.outputs.codeql-path }}
-
-    - name: Build code
-      shell: bash
-      run: ./build.sh
-
-    - uses: ./../action/analyze
-      id: analysis
-      with:
-        upload-database: false
-    env:
-      CODEQL_ACTION_SCALING_RESERVED_RAM: true
-      CODEQL_ACTION_TEST_MODE: true

.github/workflows/__split-workflow.yml

@@ -1,114 +1,121 @@
 # Warning: This file is generated automatically, and should not be modified.
 # Instead, please modify the template in the pr-checks directory and run:
-#     (cd pr-checks; pip install ruamel.yaml@0.17.31 && python3 sync.py)
+#     pr-checks/sync.sh
 # to regenerate this file.
 
 name: PR Check - Split workflow
 env:
   GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }}
   GO111MODULE: auto
-  CODEQL_EXTRACTOR_JAVA_AGENT_DISABLE_KOTLIN: 'true'
 on:
   push:
     branches:
-    - main
-    - releases/v*
+      - main
+      - releases/v*
   pull_request:
     types:
-    - opened
-    - synchronize
-    - reopened
-    - ready_for_review
-  workflow_dispatch: {}
+      - opened
+      - synchronize
+      - reopened
+      - ready_for_review
+  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' }}
+  group: ${{ github.workflow }}-${{ github.ref }}
 jobs:
   split-workflow:
     strategy:
+      fail-fast: false
       matrix:
         include:
-        - os: ubuntu-latest
-          version: latest
-        - os: macos-latest
-          version: latest
-        - os: ubuntu-latest
-          version: default
-        - os: macos-latest
-          version: default
-        - os: ubuntu-latest
-          version: nightly-latest
-        - os: macos-latest
-          version: nightly-latest
+          - 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: write
+      security-events: read
     timeout-minutes: 45
     runs-on: ${{ matrix.os }}
     steps:
-    - name: Setup Python on MacOS
-      uses: actions/setup-python@v5
-      if: >-
-        matrix.os == 'macos-latest' && (
+      - name: Check out repository
+        uses: actions/checkout@v5
+      - 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 Go
+        uses: actions/setup-go@v6
+        with:
+          go-version: ${{ inputs.go-version || '>=1.21.0' }}
+          cache: false
+      - 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
 
-        matrix.version == 'stable-20221211' ||
+      - 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"
 
-        matrix.version == 'stable-20230418' ||
-
-        matrix.version == 'stable-v2.13.5' ||
-
-        matrix.version == 'stable-v2.14.6')
-      with:
-        python-version: '3.11'
-    - name: Check out repository
-      uses: actions/checkout@v4
-    - name: Prepare test
-      id: prepare-test
-      uses: ./.github/actions/prepare-test
-      with:
-        version: ${{ matrix.version }}
-        use-all-platform-bundle: 'false'
-    - name: Set environment variable for Swift enablement
-      if: runner.os != 'Windows' && matrix.version == '20221211'
-      shell: bash
-      run: echo "CODEQL_ENABLE_EXPERIMENTAL_FEATURES_SWIFT=true" >> $GITHUB_ENV
-    - 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
-      shell: bash
-      run: ./build.sh
-    - uses: ./../action/analyze
-      with:
-        skip-queries: true
-        output: ${{ runner.temp }}/results
-        upload-database: false
-
-    - name: Assert No Results
-      shell: bash
-      run: |
-        if [ "$(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: ${{ runner.temp }}/results
-        upload-database: false
-    - name: Assert Results
-      shell: bash
-      run: |
-        cd "$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 '$EXPECTED_RULES'."
-          exit 1
-        fi
+          # use tr to replace newlines with spaces and xargs to trim leading and trailing whitespace
+          RULES="$(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 +1,85 @@
+# 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 - Start proxy
+env:
+  GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }}
+  GO111MODULE: auto
+on:
+  push:
+    branches:
+      - main
+      - releases/v*
+  pull_request:
+    types:
+      - opened
+      - synchronize
+      - reopened
+      - ready_for_review
+  schedule:
+    - cron: '0 5 * * *'
+  workflow_dispatch:
+    inputs: {}
+  workflow_call:
+    inputs: {}
+defaults:
+  run:
+    shell: bash
+concurrency:
+  cancel-in-progress: ${{ github.event_name == 'pull_request' }}
+  group: ${{ github.workflow }}-${{ 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@v5
+      - 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: ${{ steps.prepare-test.outputs.tools-url }}
+
+      - name: Setup proxy for registries
+        id: proxy
+        uses: ./../action/start-proxy
+        with:
+          registry_secrets: '[{ "type": "nuget_feed", "url": "https://api.nuget.org/v3/index.json"
+            }]'
+
+      - name: Print proxy outputs
+        run: |
+          echo "${{ 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
+    env:
+      CODEQL_ACTION_TEST_MODE: true

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

@@ -1,86 +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:
-#     (cd pr-checks; pip install ruamel.yaml@0.17.31 && python3 sync.py)
+#     pr-checks/sync.sh
 # to regenerate this file.
 
 name: PR Check - Submit SARIF after failure
 env:
   GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }}
   GO111MODULE: auto
-  CODEQL_EXTRACTOR_JAVA_AGENT_DISABLE_KOTLIN: 'true'
 on:
   push:
     branches:
-    - main
-    - releases/v*
+      - main
+      - releases/v*
   pull_request:
     types:
-    - opened
-    - synchronize
-    - reopened
-    - ready_for_review
-  workflow_dispatch: {}
+      - opened
+      - synchronize
+      - reopened
+      - ready_for_review
+  schedule:
+    - cron: '0 5 * * *'
+  workflow_dispatch:
+    inputs: {}
+  workflow_call:
+    inputs: {}
+defaults:
+  run:
+    shell: bash
+concurrency:
+  cancel-in-progress: ${{ github.event_name == 'pull_request' }}
+  group: ${{ github.workflow }}-${{ github.ref }}
 jobs:
   submit-sarif-failure:
     strategy:
+      fail-fast: false
       matrix:
         include:
-        - os: ubuntu-latest
-          version: latest
-        - os: ubuntu-latest
-          version: default
-        - os: ubuntu-latest
-          version: nightly-latest
+          - 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
+      security-events: write # needed to upload the SARIF file
+
     timeout-minutes: 45
     runs-on: ${{ matrix.os }}
     steps:
-    - name: Setup Python on MacOS
-      uses: actions/setup-python@v5
-      if: >-
-        matrix.os == 'macos-latest' && (
-
-        matrix.version == 'stable-20221211' ||
-
-        matrix.version == 'stable-20230418' ||
-
-        matrix.version == 'stable-v2.13.5' ||
-
-        matrix.version == 'stable-v2.14.6')
-      with:
-        python-version: '3.11'
-    - name: Check out repository
-      uses: actions/checkout@v4
-    - name: Prepare test
-      id: prepare-test
-      uses: ./.github/actions/prepare-test
-      with:
-        version: ${{ matrix.version }}
-        use-all-platform-bundle: 'false'
-    - name: Set environment variable for Swift enablement
-      if: runner.os != 'Windows' && matrix.version == '20221211'
-      shell: bash
-      run: echo "CODEQL_ENABLE_EXPERIMENTAL_FEATURES_SWIFT=true" >> $GITHUB_ENV
-    - uses: actions/checkout@v4
-    - uses: ./init
-      with:
-        languages: javascript
-    - name: Fail
+      - name: Check out repository
+        uses: actions/checkout@v5
+      - 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@v5
+      - uses: ./init
+        with:
+          languages: javascript
+          tools: ${{ steps.prepare-test.outputs.tools-url }}
+      - name: Fail
     # We want this job to pass if the Action correctly uploads the SARIF file for
     # the failed run.
     # Setting this step to continue on error means that it is marked as completing
     # successfully, so will not fail the job.
-      continue-on-error: true
-      run: exit 1
-    - uses: ./analyze
+        continue-on-error: true
+        run: exit 1
+      - uses: ./analyze
     # In a real workflow, this step wouldn't run. Since we used `continue-on-error`
     # above, we manually disable it with an `if` condition.
-      if: false
-      with:
-        category: /test-codeql-version:${{ matrix.version }}
+        if: false
+        with:
+          category: /test-codeql-version:${{ matrix.version }}
     env:
   # Internal-only environment variable used to indicate that the post-init Action
   # should expect to upload a SARIF file for the failed run.

.github/workflows/__swift-autobuild.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 - Swift analysis using autobuild
+env:
+  GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }}
+  GO111MODULE: auto
+on:
+  push:
+    branches:
+      - main
+      - releases/v*
+  pull_request:
+    types:
+      - opened
+      - synchronize
+      - reopened
+      - ready_for_review
+  schedule:
+    - cron: '0 5 * * *'
+  workflow_dispatch:
+    inputs: {}
+  workflow_call:
+    inputs: {}
+defaults:
+  run:
+    shell: bash
+concurrency:
+  cancel-in-progress: ${{ github.event_name == 'pull_request' }}
+  group: ${{ github.workflow }}-${{ github.ref }}
+jobs:
+  swift-autobuild:
+    strategy:
+      fail-fast: false
+      matrix:
+        include:
+          - os: macos-latest
+            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@v5
+      - 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

@@ -1,101 +1,102 @@
 # Warning: This file is generated automatically, and should not be modified.
 # Instead, please modify the template in the pr-checks directory and run:
-#     (cd pr-checks; pip install ruamel.yaml@0.17.31 && python3 sync.py)
+#     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
-  CODEQL_EXTRACTOR_JAVA_AGENT_DISABLE_KOTLIN: 'true'
 on:
   push:
     branches:
-    - main
-    - releases/v*
+      - main
+      - releases/v*
   pull_request:
     types:
-    - opened
-    - synchronize
-    - reopened
-    - ready_for_review
-  workflow_dispatch: {}
+      - opened
+      - synchronize
+      - reopened
+      - ready_for_review
+  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' }}
+  group: ${{ github.workflow }}-${{ github.ref }}
 jobs:
   swift-custom-build:
     strategy:
+      fail-fast: false
       matrix:
         include:
-        - os: ubuntu-latest
-          version: latest
-        - os: macos-latest
-          version: latest
-        - os: ubuntu-latest
-          version: default
-        - os: macos-latest
-          version: default
-        - os: ubuntu-latest
-          version: nightly-latest
-        - os: macos-latest
-          version: nightly-latest
+          - os: macos-latest
+            version: linked
+          - os: macos-latest
+            version: default
+          - os: macos-latest
+            version: nightly-latest
     name: Swift analysis using a custom build command
+    if: github.triggering_actor != 'dependabot[bot]'
     permissions:
       contents: read
-      security-events: write
+      security-events: read
     timeout-minutes: 45
     runs-on: ${{ matrix.os }}
     steps:
-    - name: Setup Python on MacOS
-      uses: actions/setup-python@v5
-      if: >-
-        matrix.os == 'macos-latest' && (
-
-        matrix.version == 'stable-20221211' ||
-
-        matrix.version == 'stable-20230418' ||
-
-        matrix.version == 'stable-v2.13.5' ||
-
-        matrix.version == 'stable-v2.14.6')
-      with:
-        python-version: '3.11'
-    - name: Check out repository
-      uses: actions/checkout@v4
-    - name: Prepare test
-      id: prepare-test
-      uses: ./.github/actions/prepare-test
-      with:
-        version: ${{ matrix.version }}
-        use-all-platform-bundle: 'false'
-    - name: Set environment variable for Swift enablement
-      if: runner.os != 'Windows' && matrix.version == '20221211'
-      shell: bash
-      run: echo "CODEQL_ENABLE_EXPERIMENTAL_FEATURES_SWIFT=true" >> $GITHUB_ENV
-    - uses: ./../action/init
-      id: init
-      with:
-        languages: swift
-        tools: ${{ steps.prepare-test.outputs.tools-url }}
-    - uses: ./../action/.github/actions/setup-swift
-      with:
-        codeql-path: ${{steps.init.outputs.codeql-path}}
-    - name: Check working directory
-      shell: bash
-      run: pwd
-    - name: Build code
-      shell: bash
-      run: ./build.sh
-    - uses: ./../action/analyze
-      id: analysis
-      with:
-        upload-database: false
-    - name: Check database
-      shell: bash
-      run: |
-        SWIFT_DB="${{ fromJson(steps.analysis.outputs.db-locations).swift }}"
-        if [[ ! -d "$SWIFT_DB" ]]; then
-          echo "Did not create a database for Swift."
-          exit 1
-        fi
+      - name: Check out repository
+        uses: actions/checkout@v5
+      - 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 Go
+        uses: actions/setup-go@v6
+        with:
+          go-version: ${{ inputs.go-version || '>=1.21.0' }}
+          cache: false
+      - name: Use Xcode 16
+        if: runner.os == 'macOS' && matrix.version != 'nightly-latest'
+        run: sudo xcode-select -s "/Applications/Xcode_16.app"
+      - 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/__test-autobuild-working-dir.yml

@@ -1,89 +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:
-#     (cd pr-checks; pip install ruamel.yaml@0.17.31 && python3 sync.py)
+#     pr-checks/sync.sh
 # to regenerate this file.
 
 name: PR Check - Autobuild working directory
 env:
   GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }}
   GO111MODULE: auto
-  CODEQL_EXTRACTOR_JAVA_AGENT_DISABLE_KOTLIN: 'true'
 on:
   push:
     branches:
-    - main
-    - releases/v*
+      - main
+      - releases/v*
   pull_request:
     types:
-    - opened
-    - synchronize
-    - reopened
-    - ready_for_review
-  workflow_dispatch: {}
+      - opened
+      - synchronize
+      - reopened
+      - ready_for_review
+  schedule:
+    - cron: '0 5 * * *'
+  workflow_dispatch:
+    inputs: {}
+  workflow_call:
+    inputs: {}
+defaults:
+  run:
+    shell: bash
+concurrency:
+  cancel-in-progress: ${{ github.event_name == 'pull_request' }}
+  group: ${{ github.workflow }}-${{ github.ref }}
 jobs:
   test-autobuild-working-dir:
     strategy:
+      fail-fast: false
       matrix:
         include:
-        - os: ubuntu-latest
-          version: latest
+          - os: ubuntu-latest
+            version: linked
     name: Autobuild working directory
+    if: github.triggering_actor != 'dependabot[bot]'
     permissions:
       contents: read
-      security-events: write
+      security-events: read
     timeout-minutes: 45
     runs-on: ${{ matrix.os }}
     steps:
-    - name: Setup Python on MacOS
-      uses: actions/setup-python@v5
-      if: >-
-        matrix.os == 'macos-latest' && (
-
-        matrix.version == 'stable-20221211' ||
-
-        matrix.version == 'stable-20230418' ||
-
-        matrix.version == 'stable-v2.13.5' ||
-
-        matrix.version == 'stable-v2.14.6')
-      with:
-        python-version: '3.11'
-    - name: Check out repository
-      uses: actions/checkout@v4
-    - name: Prepare test
-      id: prepare-test
-      uses: ./.github/actions/prepare-test
-      with:
-        version: ${{ matrix.version }}
-        use-all-platform-bundle: 'false'
-    - name: Set environment variable for Swift enablement
-      if: runner.os != 'Windows' && matrix.version == '20221211'
-      shell: bash
-      run: echo "CODEQL_ENABLE_EXPERIMENTAL_FEATURES_SWIFT=true" >> $GITHUB_ENV
-    - name: Test setup
-      shell: bash
-      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: ${{ steps.prepare-test.outputs.tools-url }}
-    - uses: ./../action/autobuild
-      with:
-        working-directory: autobuild-dir
-    - uses: ./../action/analyze
-      with:
-        upload-database: false
-    - name: Check database
-      shell: bash
-      run: |
-        cd "$RUNNER_TEMP/codeql_databases"
-        if [[ ! -d java ]]; then
-          echo "Did not find a Java database"
-          exit 1
-        fi
+      - name: Check out repository
+        uses: actions/checkout@v5
+      - 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/__test-local-codeql.yml

@@ -1,83 +1,86 @@
 # Warning: This file is generated automatically, and should not be modified.
 # Instead, please modify the template in the pr-checks directory and run:
-#     (cd pr-checks; pip install ruamel.yaml@0.17.31 && python3 sync.py)
+#     pr-checks/sync.sh
 # to regenerate this file.
 
 name: PR Check - Local CodeQL bundle
 env:
   GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }}
   GO111MODULE: auto
-  CODEQL_EXTRACTOR_JAVA_AGENT_DISABLE_KOTLIN: 'true'
 on:
   push:
     branches:
-    - main
-    - releases/v*
+      - main
+      - releases/v*
   pull_request:
     types:
-    - opened
-    - synchronize
-    - reopened
-    - ready_for_review
-  workflow_dispatch: {}
+      - opened
+      - synchronize
+      - reopened
+      - ready_for_review
+  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' }}
+  group: ${{ github.workflow }}-${{ github.ref }}
 jobs:
   test-local-codeql:
     strategy:
+      fail-fast: false
       matrix:
         include:
-        - os: ubuntu-latest
-          version: nightly-latest
+          - os: ubuntu-latest
+            version: linked
     name: Local CodeQL bundle
+    if: github.triggering_actor != 'dependabot[bot]'
     permissions:
       contents: read
-      security-events: write
+      security-events: read
     timeout-minutes: 45
     runs-on: ${{ matrix.os }}
     steps:
-    - name: Setup Python on MacOS
-      uses: actions/setup-python@v5
-      if: >-
-        matrix.os == 'macos-latest' && (
-
-        matrix.version == 'stable-20221211' ||
-
-        matrix.version == 'stable-20230418' ||
-
-        matrix.version == 'stable-v2.13.5' ||
-
-        matrix.version == 'stable-v2.14.6')
-      with:
-        python-version: '3.11'
-    - name: Check out repository
-      uses: actions/checkout@v4
-    - name: Prepare test
-      id: prepare-test
-      uses: ./.github/actions/prepare-test
-      with:
-        version: ${{ matrix.version }}
-        use-all-platform-bundle: 'false'
-    - name: Set environment variable for Swift enablement
-      if: runner.os != 'Windows' && matrix.version == '20221211'
-      shell: bash
-      run: echo "CODEQL_ENABLE_EXPERIMENTAL_FEATURES_SWIFT=true" >> $GITHUB_ENV
-    - name: Fetch a CodeQL bundle
-      shell: bash
-      env:
-        CODEQL_URL: ${{ steps.prepare-test.outputs.tools-url }}
-      run: |
-        wget "$CODEQL_URL"
-    - id: init
-      uses: ./../action/init
-      with:
-        tools: ./codeql-bundle-linux64.tar.gz
-    - uses: ./../action/.github/actions/setup-swift
-      with:
-        codeql-path: ${{ steps.init.outputs.codeql-path }}
-    - name: Build code
-      shell: bash
-      run: ./build.sh
-    - uses: ./../action/analyze
-      with:
-        upload-database: false
+      - name: Check out repository
+        uses: actions/checkout@v5
+      - 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 Go
+        uses: actions/setup-go@v6
+        with:
+          go-version: ${{ inputs.go-version || '>=1.21.0' }}
+          cache: false
+      - 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/__test-proxy.yml

@@ -1,80 +1,86 @@
 # Warning: This file is generated automatically, and should not be modified.
 # Instead, please modify the template in the pr-checks directory and run:
-#     (cd pr-checks; pip install ruamel.yaml@0.17.31 && python3 sync.py)
+#     pr-checks/sync.sh
 # to regenerate this file.
 
 name: PR Check - Proxy test
 env:
   GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }}
   GO111MODULE: auto
-  CODEQL_EXTRACTOR_JAVA_AGENT_DISABLE_KOTLIN: 'true'
 on:
   push:
     branches:
-    - main
-    - releases/v*
+      - main
+      - releases/v*
   pull_request:
     types:
-    - opened
-    - synchronize
-    - reopened
-    - ready_for_review
-  workflow_dispatch: {}
+      - opened
+      - synchronize
+      - reopened
+      - ready_for_review
+  schedule:
+    - cron: '0 5 * * *'
+  workflow_dispatch:
+    inputs: {}
+  workflow_call:
+    inputs: {}
+defaults:
+  run:
+    shell: bash
+concurrency:
+  cancel-in-progress: ${{ github.event_name == 'pull_request' }}
+  group: ${{ github.workflow }}-${{ github.ref }}
 jobs:
   test-proxy:
     strategy:
+      fail-fast: false
       matrix:
         include:
-        - os: ubuntu-latest
-          version: latest
+          - 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: write
+      security-events: read
     timeout-minutes: 45
     runs-on: ${{ matrix.os }}
     steps:
-    - name: Setup Python on MacOS
-      uses: actions/setup-python@v5
-      if: >-
-        matrix.os == 'macos-latest' && (
-
-        matrix.version == 'stable-20221211' ||
-
-        matrix.version == 'stable-20230418' ||
-
-        matrix.version == 'stable-v2.13.5' ||
-
-        matrix.version == 'stable-v2.14.6')
-      with:
-        python-version: '3.11'
-    - name: Check out repository
-      uses: actions/checkout@v4
-    - name: Prepare test
-      id: prepare-test
-      uses: ./.github/actions/prepare-test
-      with:
-        version: ${{ matrix.version }}
-        use-all-platform-bundle: 'false'
-    - name: Set environment variable for Swift enablement
-      if: runner.os != 'Windows' && matrix.version == '20221211'
-      shell: bash
-      run: echo "CODEQL_ENABLE_EXPERIMENTAL_FEATURES_SWIFT=true" >> $GITHUB_ENV
-    - uses: ./../action/init
-      with:
-        languages: javascript
-        tools: ${{ steps.prepare-test.outputs.tools-url }}
-    - uses: ./../action/analyze
-      with:
-        upload-database: false
+  # These steps are required to initialise the `gh` cli in a container that doesn't
+  # come pre-installed with it. The reason for that is that this is later
+  # needed by the `prepare-test` workflow to find the latest release of CodeQL.
+      - name: Set up GitHub CLI
+        run: |
+          apt update
+          apt install -y curl libreadline8 gnupg2 software-properties-common zstd
+          curl -fsSL https://cli.github.com/packages/githubcli-archive-keyring.gpg | dd of=/usr/share/keyrings/githubcli-archive-keyring.gpg
+          apt-key add /usr/share/keyrings/githubcli-archive-keyring.gpg
+          apt-add-repository https://cli.github.com/packages
+          apt install -y gh
+        env: {}
+      - name: Check out repository
+        uses: actions/checkout@v5
+      - name: Prepare test
+        id: prepare-test
+        uses: ./.github/actions/prepare-test
+        with:
+          version: ${{ matrix.version }}
+          use-all-platform-bundle: 'false'
+          setup-kotlin: 'false'
+      - uses: ./../action/init
+        with:
+          languages: javascript
+          tools: ${{ steps.prepare-test.outputs.tools-url }}
+      - uses: ./../action/analyze
     env:
       https_proxy: http://squid-proxy:3128
       CODEQL_ACTION_TEST_MODE: true
     container:
       image: ubuntu:22.04
-      options: --dns 127.0.0.1
     services:
       squid-proxy:
         image: ubuntu/squid:latest
         ports:
-        - 3128:3128
+          - 3128:3128

.github/workflows/__unset-environment.yml

@@ -1,132 +1,126 @@
 # Warning: This file is generated automatically, and should not be modified.
 # Instead, please modify the template in the pr-checks directory and run:
-#     (cd pr-checks; pip install ruamel.yaml@0.17.31 && python3 sync.py)
+#     pr-checks/sync.sh
 # to regenerate this file.
 
 name: PR Check - Test unsetting environment variables
 env:
   GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }}
   GO111MODULE: auto
-  CODEQL_EXTRACTOR_JAVA_AGENT_DISABLE_KOTLIN: 'true'
 on:
   push:
     branches:
-    - main
-    - releases/v*
+      - main
+      - releases/v*
   pull_request:
     types:
-    - opened
-    - synchronize
-    - reopened
-    - ready_for_review
-  workflow_dispatch: {}
+      - opened
+      - synchronize
+      - reopened
+      - ready_for_review
+  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' }}
+  group: ${{ github.workflow }}-${{ github.ref }}
 jobs:
   unset-environment:
     strategy:
+      fail-fast: false
       matrix:
         include:
-        - os: ubuntu-latest
-          version: stable-20221211
-        - os: ubuntu-latest
-          version: stable-20230418
-        - os: ubuntu-latest
-          version: stable-v2.13.5
-        - os: ubuntu-latest
-          version: stable-v2.14.6
-        - os: ubuntu-latest
-          version: default
-        - os: ubuntu-latest
-          version: latest
-        - os: ubuntu-latest
-          version: nightly-latest
+          - 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: write
+      security-events: read
     timeout-minutes: 45
     runs-on: ${{ matrix.os }}
     steps:
-    - name: Setup Python on MacOS
-      uses: actions/setup-python@v5
-      if: >-
-        matrix.os == 'macos-latest' && (
-
-        matrix.version == 'stable-20221211' ||
-
-        matrix.version == 'stable-20230418' ||
-
-        matrix.version == 'stable-v2.13.5' ||
-
-        matrix.version == 'stable-v2.14.6')
-      with:
-        python-version: '3.11'
-    - name: Check out repository
-      uses: actions/checkout@v4
-    - name: Prepare test
-      id: prepare-test
-      uses: ./.github/actions/prepare-test
-      with:
-        version: ${{ matrix.version }}
-        use-all-platform-bundle: 'false'
-    - name: Set environment variable for Swift enablement
-      if: runner.os != 'Windows' && matrix.version == '20221211'
-      shell: bash
-      run: echo "CODEQL_ENABLE_EXPERIMENTAL_FEATURES_SWIFT=true" >> $GITHUB_ENV
-    - uses: ./../action/init
-      id: init
-      with:
-        db-location: ${{ runner.temp }}/customDbLocation
-        tools: ${{ steps.prepare-test.outputs.tools-url }}
-    - uses: ./../action/.github/actions/setup-swift
-      with:
-        codeql-path: ${{ steps.init.outputs.codeql-path }}
-    - name: Build code
-      shell: bash
-    # Disable Kotlin analysis while it's incompatible with Kotlin 1.8, until we find a
-    # workaround for our PR checks.
-      run: env -i CODEQL_EXTRACTOR_JAVA_AGENT_DISABLE_KOTLIN=true PATH="$PATH" HOME="$HOME"
-        ./build.sh
-    - uses: ./../action/analyze
-      id: analysis
-      with:
-        upload-database: false
-    - shell: bash
-      run: |
-        CPP_DB="${{ 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
+      - name: Check out repository
+        uses: actions/checkout@v5
+      - 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 Go
+        uses: actions/setup-go@v6
+        with:
+          go-version: ${{ inputs.go-version || '>=1.21.0' }}
+          cache: false
+      - 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-quality-sarif.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 - Upload-sarif: code quality endpoint'
+env:
+  GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }}
+  GO111MODULE: auto
+on:
+  push:
+    branches:
+      - main
+      - releases/v*
+  pull_request:
+    types:
+      - opened
+      - synchronize
+      - reopened
+      - ready_for_review
+  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' }}
+  group: ${{ github.workflow }}-${{ github.ref }}
+jobs:
+  upload-quality-sarif:
+    strategy:
+      fail-fast: false
+      matrix:
+        include:
+          - os: ubuntu-latest
+            version: default
+          - os: macos-latest
+            version: default
+          - os: windows-latest
+            version: default
+    name: 'Upload-sarif: code quality endpoint'
+    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@v5
+      - 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 Go
+        uses: actions/setup-go@v6
+        with:
+          go-version: ${{ inputs.go-version || '>=1.21.0' }}
+          cache: false
+      - uses: ./../action/init
+        with:
+          tools: ${{ steps.prepare-test.outputs.tools-url }}
+          languages: csharp,java,javascript,python
+          analysis-kinds: code-quality
+      - 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
+        id: upload-sarif
+        with:
+          ref: refs/heads/main
+          sha: 5e235361806c361d4d3f8859e3c897658025a9a2
+      - name: Check output from `upload-sarif` step
+        if: fromJSON(steps.upload-sarif.outputs.sarif-ids)[0].analysis != 'code-quality'
+        run: exit 1
+    env:
+      CODEQL_ACTION_TEST_MODE: true

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

@@ -1,87 +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:
-#     (cd pr-checks; pip install ruamel.yaml@0.17.31 && python3 sync.py)
+#     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
-  CODEQL_EXTRACTOR_JAVA_AGENT_DISABLE_KOTLIN: 'true'
 on:
   push:
     branches:
-    - main
-    - releases/v*
+      - main
+      - releases/v*
   pull_request:
     types:
-    - opened
-    - synchronize
-    - reopened
-    - ready_for_review
-  workflow_dispatch: {}
+      - opened
+      - synchronize
+      - reopened
+      - ready_for_review
+  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' }}
+  group: ${{ github.workflow }}-${{ github.ref }}
 jobs:
   upload-ref-sha-input:
     strategy:
+      fail-fast: false
       matrix:
         include:
-        - os: ubuntu-latest
-          version: default
-        - os: macos-latest
-          version: default
-        - os: windows-latest
-          version: default
+          - os: ubuntu-latest
+            version: default
+          - os: macos-latest
+            version: default
+          - os: windows-latest
+            version: default
     name: "Upload-sarif: 'ref' and 'sha' from inputs"
+    if: github.triggering_actor != 'dependabot[bot]'
     permissions:
       contents: read
-      security-events: write
+      security-events: read
     timeout-minutes: 45
     runs-on: ${{ matrix.os }}
     steps:
-    - name: Setup Python on MacOS
-      uses: actions/setup-python@v5
-      if: >-
-        matrix.os == 'macos-latest' && (
-
-        matrix.version == 'stable-20221211' ||
-
-        matrix.version == 'stable-20230418' ||
-
-        matrix.version == 'stable-v2.13.5' ||
-
-        matrix.version == 'stable-v2.14.6')
-      with:
-        python-version: '3.11'
-    - name: Check out repository
-      uses: actions/checkout@v4
-    - name: Prepare test
-      id: prepare-test
-      uses: ./.github/actions/prepare-test
-      with:
-        version: ${{ matrix.version }}
-        use-all-platform-bundle: 'false'
-    - name: Set environment variable for Swift enablement
-      if: runner.os != 'Windows' && matrix.version == '20221211'
-      shell: bash
-      run: echo "CODEQL_ENABLE_EXPERIMENTAL_FEATURES_SWIFT=true" >> $GITHUB_ENV
-    - 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
-      shell: bash
-      run: ./build.sh
-    - uses: ./../action/analyze
-      with:
-        upload-database: false
-        ref: refs/heads/main
-        sha: 5e235361806c361d4d3f8859e3c897658025a9a2
-        upload: never
-    - uses: ./../action/upload-sarif
-      with:
-        ref: refs/heads/main
-        sha: 5e235361806c361d4d3f8859e3c897658025a9a2
+      - name: Check out repository
+        uses: actions/checkout@v5
+      - 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 Go
+        uses: actions/setup-go@v6
+        with:
+          go-version: ${{ inputs.go-version || '>=1.21.0' }}
+          cache: false
+      - 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/__with-checkout-path.yml

@@ -1,137 +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:
-#     (cd pr-checks; pip install ruamel.yaml@0.17.31 && python3 sync.py)
+#     pr-checks/sync.sh
 # to regenerate this file.
 
 name: PR Check - Use a custom `checkout_path`
 env:
   GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }}
   GO111MODULE: auto
-  CODEQL_EXTRACTOR_JAVA_AGENT_DISABLE_KOTLIN: 'true'
 on:
   push:
     branches:
-    - main
-    - releases/v*
+      - main
+      - releases/v*
   pull_request:
     types:
-    - opened
-    - synchronize
-    - reopened
-    - ready_for_review
-  workflow_dispatch: {}
+      - opened
+      - synchronize
+      - reopened
+      - ready_for_review
+  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' }}
+  group: ${{ github.workflow }}-${{ github.ref }}
 jobs:
   with-checkout-path:
     strategy:
+      fail-fast: false
       matrix:
         include:
-        - os: ubuntu-latest
-          version: latest
-        - os: macos-latest
-          version: latest
-        - os: windows-latest
-          version: latest
+          - os: ubuntu-latest
+            version: linked
+          - os: macos-latest
+            version: linked
+          - os: windows-latest
+            version: linked
     name: Use a custom `checkout_path`
+    if: github.triggering_actor != 'dependabot[bot]'
     permissions:
       contents: read
-      security-events: write
+      security-events: read
     timeout-minutes: 45
     runs-on: ${{ matrix.os }}
     steps:
-    - name: Setup Python on MacOS
-      uses: actions/setup-python@v5
-      if: >-
-        matrix.os == 'macos-latest' && (
-
-        matrix.version == 'stable-20221211' ||
-
-        matrix.version == 'stable-20230418' ||
-
-        matrix.version == 'stable-v2.13.5' ||
-
-        matrix.version == 'stable-v2.14.6')
-      with:
-        python-version: '3.11'
-    - name: Check out repository
-      uses: actions/checkout@v4
-    - name: Prepare test
-      id: prepare-test
-      uses: ./.github/actions/prepare-test
-      with:
-        version: ${{ matrix.version }}
-        use-all-platform-bundle: 'false'
-    - name: Set environment variable for Swift enablement
-      if: runner.os != 'Windows' && matrix.version == '20221211'
-      shell: bash
-      run: echo "CODEQL_ENABLE_EXPERIMENTAL_FEATURES_SWIFT=true" >> $GITHUB_ENV
-    - name: Delete original checkout
-      shell: bash
-      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
+      - name: Check out repository
+        uses: actions/checkout@v5
+      - 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 Go
+        uses: actions/setup-go@v6
+        with:
+          go-version: ${{ inputs.go-version || '>=1.21.0' }}
+          cache: false
+      - 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@v4
-      with:
-        ref: 474bbf07f9247ffe1856c6a0f94aeeb10e7afee6
-        path: x/y/z/some-path
+      - uses: actions/checkout@v5
+        with:
+          ref: 474bbf07f9247ffe1856c6a0f94aeeb10e7afee6
+          path: x/y/z/some-path
 
-    - uses: ./../action/init
-      with:
-        tools: ${{ steps.prepare-test.outputs.tools-url }}
+      - 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
+          languages: csharp,javascript
+          source-root: x/y/z/some-path/tests/multi-language-repo
 
-    - name: Build code
-      shell: bash
-      working-directory: x/y/z/some-path/tests/multi-language-repo
-      run: |
-        ./build.sh
+      - 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
-        upload: never
-        upload-database: false
+      - uses: ./../action/analyze
+        with:
+          checkout_path: x/y/z/some-path/tests/multi-language-repo
+          ref: v1.1.0
+          sha: 474bbf07f9247ffe1856c6a0f94aeeb10e7afee6
 
-    - uses: ./../action/upload-sarif
-      with:
-        ref: v1.1.0
-        sha: 474bbf07f9247ffe1856c6a0f94aeeb10e7afee6
-        checkout_path: x/y/z/some-path/tests/multi-language-repo
+      - name: Verify SARIF after upload
+        run: |
+          EXPECTED_COMMIT_OID="474bbf07f9247ffe1856c6a0f94aeeb10e7afee6"
+          EXPECTED_REF="v1.1.0"
+          EXPECTED_CHECKOUT_URI_SUFFIX="/x/y/z/some-path/tests/multi-language-repo"
 
-    - name: Verify SARIF after upload
-      shell: bash
-      run: |
-        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="$(cat "$RUNNER_TEMP/payload.json" | jq -r .commit_oid)"
+          ACTUAL_REF="$(cat "$RUNNER_TEMP/payload.json" | jq -r .ref)"
+          ACTUAL_CHECKOUT_URI="$(cat "$RUNNER_TEMP/payload.json" | jq -r .checkout_uri)"
 
-        ACTUAL_COMMIT_OID="$(cat "$RUNNER_TEMP/payload.json" | jq -r .commit_oid)"
-        ACTUAL_REF="$(cat "$RUNNER_TEMP/payload.json" | jq -r .ref)"
-        ACTUAL_CHECKOUT_URI="$(cat "$RUNNER_TEMP/payload.json" | jq -r .checkout_uri)"
+          if [[ "$EXPECTED_COMMIT_OID" != "$ACTUAL_COMMIT_OID" ]]; then
+            echo "::error Invalid commit oid. Expected: $EXPECTED_COMMIT_OID Actual: $ACTUAL_COMMIT_OID"
+            echo "$RUNNER_TEMP/payload.json"
+            exit 1
+          fi
 
-        if [[ "$EXPECTED_COMMIT_OID" != "$ACTUAL_COMMIT_OID" ]]; then
-          echo "::error Invalid commit oid. Expected: $EXPECTED_COMMIT_OID Actual: $ACTUAL_COMMIT_OID"
-          echo "$RUNNER_TEMP/payload.json"
-          exit 1
-        fi
+          if [[ "$EXPECTED_REF" != "$ACTUAL_REF" ]]; then
+            echo "::error Invalid ref. Expected: '$EXPECTED_REF' Actual: '$ACTUAL_REF'"
+            echo "$RUNNER_TEMP/payload.json"
+            exit 1
+          fi
 
-        if [[ "$EXPECTED_REF" != "$ACTUAL_REF" ]]; then
-          echo "::error Invalid ref. Expected: '$EXPECTED_REF' Actual: '$ACTUAL_REF'"
-          echo "$RUNNER_TEMP/payload.json"
-          exit 1
-        fi
-
-        if [[ "$ACTUAL_CHECKOUT_URI" != *$EXPECTED_CHECKOUT_URI_SUFFIX ]]; then
-          echo "::error Invalid checkout URI suffix. Expected suffix: $EXPECTED_CHECKOUT_URI_SUFFIX Actual uri: $ACTUAL_CHECKOUT_URI"
-          echo "$RUNNER_TEMP/payload.json"
-          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: $ACTUAL_CHECKOUT_URI"
+            echo "$RUNNER_TEMP/payload.json"
+            exit 1
+          fi
     env:
       CODEQL_ACTION_TEST_MODE: true

.github/workflows/check-expected-release-files.yml

@@ -9,13 +9,20 @@ on:
     # by other workflows.
     types: [opened, synchronize, reopened, ready_for_review]
 
+defaults:
+  run:
+    shell: bash
+
 jobs:
   check-expected-release-files:
     runs-on: ubuntu-latest
 
+    permissions:
+      contents: read
+
     steps:
       - name: Checkout CodeQL Action
-        uses: actions/checkout@v4
+        uses: actions/checkout@v5
       - name: Check Expected Release Files
         run: |
           bundle_version="$(cat "./src/defaults.json" | jq -r ".bundleVersion")"

.github/workflows/codeql.yml

@@ -13,21 +13,26 @@ on:
     - cron: '30 1 * * 0'
   workflow_dispatch:
 
+defaults:
+  run:
+    shell: bash
+
 env:
   CODEQL_ACTION_TESTING_ENVIRONMENT: codeql-action-pr-checks
 
 jobs:
   # Identify the CodeQL tool versions to use in the analysis job.
   check-codeql-versions:
+    if: github.triggering_actor != 'dependabot[bot]'
     runs-on: ubuntu-latest
     outputs:
       versions: ${{ steps.compare.outputs.versions }}
 
     permissions:
-      security-events: write
+      contents: read
 
     steps:
-    - uses: actions/checkout@v4
+    - uses: actions/checkout@v5
     - name: Init with default CodeQL bundle from the VM image
       id: init-default
       uses: ./init
@@ -41,7 +46,7 @@ jobs:
       id: init-latest
       uses: ./init
       with:
-        tools: latest
+        tools: linked
         languages: javascript
     - name: Compare default and latest CodeQL bundle versions
       id: compare
@@ -54,45 +59,88 @@ jobs:
         echo "Default CodeQL bundle version is $CODEQL_VERSION_DEFAULT"
         echo "Latest CodeQL bundle version is $CODEQL_VERSION_LATEST"
 
-        # If we're running on a pull request, run with both bundles, even if `tools: latest` would
+        # If we're running on a pull request, run with both bundles, even if `tools: linked` would
         # be the same as `tools: null`. This allows us to make the job for each of the bundles a
         # required status check.
         #
-        # If we're running on push or schedule, then we can skip running with `tools: latest` when it would be
+        # If we're running on push or schedule, then we can skip running with `tools: linked` when it would be
         # the same as running with `tools: null`.
         if [[ "$GITHUB_EVENT_NAME" != "pull_request" && "$CODEQL_VERSION_DEFAULT" == "$CODEQL_VERSION_LATEST" ]]; then
           VERSIONS_JSON='[null]'
         else
-          VERSIONS_JSON='[null, "latest"]'
+          VERSIONS_JSON='[null, "linked"]'
         fi
 
         # Output a JSON-encoded list with the distinct versions to test against.
         echo "Suggested matrix config for analysis job: $VERSIONS_JSON"
         echo "versions=${VERSIONS_JSON}" >> $GITHUB_OUTPUT
 
-  build:
+  analyze-javascript:
+    if: github.triggering_actor != 'dependabot[bot]'
     needs: [check-codeql-versions]
     strategy:
+      fail-fast: false
       matrix:
-        os: [ubuntu-20.04,ubuntu-22.04,windows-2019,windows-2022,macos-11,macos-12,macos-13]
+        os: [ubuntu-22.04,ubuntu-24.04,windows-2022,windows-2025,macos-13,macos-14,macos-15]
         tools: ${{ fromJson(needs.check-codeql-versions.outputs.versions) }}
     runs-on: ${{ matrix.os }}
 
     permissions:
+      contents: read
       security-events: write
 
     steps:
     - name: Checkout
-      uses: actions/checkout@v4
+      uses: actions/checkout@v5
     - name: Initialize CodeQL
       uses: ./init
       id: init
       with:
         languages: javascript
-        config-file: ./.github/codeql/codeql-config.yml
+        config-file: ./.github/codeql/codeql-config-javascript.yml
         tools: ${{ matrix.tools }}
     # confirm steps.init.outputs.codeql-path points to the codeql binary
     - name: Print CodeQL Version
-      run: ${{steps.init.outputs.codeql-path}} version --format=json
+      run: >
+        "$CODEQL" version --format=json
+      env:
+        CODEQL: ${{steps.init.outputs.codeql-path}}
     - name: Perform CodeQL Analysis
       uses: ./analyze
+      with:
+        category: "/language:javascript"
+        upload: ${{ (matrix.os == 'ubuntu-24.04' && !matrix.tools && 'always') || 'never' }}
+
+  analyze-other:
+    if: github.triggering_actor != 'dependabot[bot]'
+    runs-on: ubuntu-latest
+
+    strategy:
+      fail-fast: false
+      matrix:
+        include:
+          - language: actions
+          - language: python
+
+    permissions:
+      contents: read
+      security-events: write
+
+    steps:
+    - name: Checkout
+      uses: actions/checkout@v5
+    - name: Initialize CodeQL
+      uses: ./init
+      with:
+        languages: ${{ matrix.language }}
+        build-mode: none
+        config: >
+          paths-ignore:
+            - lib
+            - tests
+          queries:
+            - uses: security-and-quality
+    - name: Perform CodeQL Analysis
+      uses: ./analyze
+      with:
+        category: "/language:${{ matrix.language }}"

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

@@ -3,6 +3,9 @@
 name: Code-Scanning config CLI tests
 env:
   GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }}
+  # Diff informed queries add an additional query filter which is not yet
+  # taken into account by these tests.
+  CODEQL_ACTION_DIFF_INFORMED_QUERIES: false
 
 on:
   push:
@@ -15,19 +18,32 @@ on:
     - synchronize
     - reopened
     - ready_for_review
+  schedule:
+    - cron: '0 5 * * *'
   workflow_dispatch: {}
 
+defaults:
+  run:
+    shell: bash
+
 jobs:
   code-scanning-config-tests:
+    if: github.triggering_actor != 'dependabot[bot]'
     continue-on-error: true
 
+    permissions:
+      contents: read
+      packages: read
+      security-events: read
+
     strategy:
+      fail-fast: false
       matrix:
         include:
         - os: ubuntu-latest
-          version: latest
+          version: linked
         - os: macos-latest
-          version: latest
+          version: linked
         - os: ubuntu-latest
           version: default
         - os: macos-latest
@@ -43,7 +59,17 @@ jobs:
     runs-on: ${{ matrix.os }}
     steps:
     - name: Check out repository
-      uses: actions/checkout@v4
+      uses: actions/checkout@v5
+
+    - name: Set up Node.js
+      uses: actions/setup-node@v5
+      with:
+        node-version: '20'
+        cache: 'npm'
+
+    - name: Install dependencies
+      run: npm ci
+
     - name: Prepare test
       id: prepare-test
       uses: ./.github/actions/prepare-test
@@ -155,13 +181,13 @@ jobs:
       with:
         expected-config-file-contents: |
           {
-            "queries": [
-              { "uses": "./codeql-qlpacks/complex-javascript-qlpack/foo2/show_ifs.ql" },
-              { "uses": "./codeql-qlpacks/complex-javascript-qlpack/show_ifs.ql" }
-            ],
             "packs": {
               "javascript": ["codeql-testing/codeql-pack1@1.0.0", "codeql-testing/codeql-pack2", "codeql/javascript-queries" ]
-            }
+            },
+            "queries": [
+              { "uses": "./codeql-qlpacks/complex-javascript-qlpack/show_ifs.ql" },
+              { "uses": "./codeql-qlpacks/complex-javascript-qlpack/foo2/show_ifs.ql" }
+            ]
           }
         languages: javascript
         queries: + ./codeql-qlpacks/complex-javascript-qlpack/show_ifs.ql

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

@@ -0,0 +1,107 @@
+# Checks logs, SARIF, and database bundle debug artifacts exist
+# when the analyze step fails.
+name: PR Check - Debug artifacts after failure
+env:
+  GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }}
+on:
+  push:
+    branches:
+    - main
+    - releases/v*
+  pull_request:
+    types:
+    - opened
+    - synchronize
+    - reopened
+    - ready_for_review
+  schedule:
+    - cron: '0 5 * * *'
+  workflow_dispatch: {}
+
+defaults:
+  run:
+    shell: bash
+
+jobs:
+  upload-artifacts:
+    if: github.triggering_actor != 'dependabot[bot]'
+    strategy:
+      fail-fast: false
+      matrix:
+        version:
+        - stable-v2.20.3
+        - default
+        - linked
+        - nightly-latest
+    name: Upload debug artifacts after failure in analyze
+    continue-on-error: true
+    env:
+      CODEQL_ACTION_TEST_MODE: true
+    permissions:
+      contents: read
+    timeout-minutes: 45
+    runs-on: ubuntu-latest
+    steps:
+      - name: Dump GitHub event
+        run: cat "${GITHUB_EVENT_PATH}"
+      - name: Check out repository
+        uses: actions/checkout@v5
+      - name: Prepare test
+        id: prepare-test
+        uses: ./.github/actions/prepare-test
+        with:
+          version: ${{ matrix.version }}
+      - uses: actions/setup-go@v6
+        with:
+          go-version: ^1.13.1
+      - uses: ./../action/init
+        with:
+          tools: ${{ steps.prepare-test.outputs.tools-url }}
+          debug: true
+          debug-artifact-name: my-debug-artifacts
+          debug-database-name: my-db
+      - name: Build code
+        run: ./build.sh
+      - uses: ./../action/analyze
+        id: analysis
+        env:
+          # Forces a failure in this step.
+          CODEQL_ACTION_EXTRA_OPTIONS: '{ "database": { "finalize": ["--invalid-option"] } }'
+        with:
+          expect-error: true
+  download-and-check-artifacts:
+    name: Download and check debug artifacts after failure in analyze
+    if: github.triggering_actor != 'dependabot[bot]'
+    needs: upload-artifacts
+    timeout-minutes: 45
+    permissions:
+      contents: read
+    runs-on: ubuntu-latest
+    steps:
+      - name: Download all artifacts
+        uses: actions/download-artifact@v5
+      - name: Check expected artifacts exist
+        run: |
+          LANGUAGES="cpp csharp go java javascript python"
+          for version in $VERSIONS; do
+            echo "Artifacts from version $version:"
+            pushd "./my-debug-artifacts-${version//./}"
+            for language in $LANGUAGES; do
+              echo "- Checking $language"
+              if [[ ! -f "my-db-$language-partial.zip" ]] ; then
+                echo "Missing a partial database bundle for $language"
+                exit 1
+              fi
+              if [[ ! -d "log" ]] ; then
+                echo "Missing database initialization logs"
+                exit 1
+              fi
+              if [[ ! "$language" == "go" ]] && [[ ! -d "$language/log" ]] ; then
+                echo "Missing logs for $language"
+                exit 1
+              fi
+            done
+            popd
+          done
+        env:
+          GO111MODULE: auto

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

@@ -1,88 +0,0 @@
-# Checks logs, SARIF, and database bundle debug artifacts exist
-# when the analyze step fails.
-name: PR Check - Debug artifacts after failure
-env:
-  # Disable Kotlin analysis while it's incompatible with Kotlin 1.8, until we find a
-  # workaround for our PR checks.
-  CODEQL_EXTRACTOR_JAVA_AGENT_DISABLE_KOTLIN: true
-  GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }}
-on:
-  push:
-    branches:
-    - main
-    - releases/v*
-  pull_request:
-    types:
-    - opened
-    - synchronize
-    - reopened
-    - ready_for_review
-  workflow_dispatch: {}
-jobs:
-  upload-artifacts:
-    name: Upload debug artifacts after failure in analyze
-    continue-on-error: true
-    env:
-      CODEQL_ACTION_TEST_MODE: true
-    timeout-minutes: 45
-    runs-on: ubuntu-latest
-    steps:
-      - name: Dump GitHub event
-        run: cat "${GITHUB_EVENT_PATH}"
-      - name: Check out repository
-        uses: actions/checkout@v4
-      - name: Prepare test
-        id: prepare-test
-        uses: ./.github/actions/prepare-test
-        with:
-          version: latest
-      - uses: actions/setup-go@v5
-        with:
-          go-version: ^1.13.1
-      - uses: ./../action/init
-        with:
-          tools: ${{ steps.prepare-test.outputs.tools-url }}
-          debug: true
-          debug-artifact-name: my-debug-artifacts
-          debug-database-name: my-db
-      - name: Build code
-        shell: bash
-        run: ./build.sh
-      - uses: ./../action/analyze
-        id: analysis
-        env: 
-          # Forces a failure in this step.
-          CODEQL_ACTION_EXTRA_OPTIONS: '{ "database": { "finalize": ["--invalid-option"] } }'
-        with:
-          expect-error: true
-  download-and-check-artifacts:
-    name: Download and check debug artifacts after failure in analyze
-    needs: upload-artifacts
-    timeout-minutes: 45
-    runs-on: ubuntu-latest
-    steps:
-      - name: Download all artifacts
-        uses: actions/download-artifact@v3
-      - name: Check expected artifacts exist
-        shell: bash
-        run: |
-          LANGUAGES="cpp csharp go java javascript python"
-          cd "./my-debug-artifacts"
-          echo "Artifacts from run:"
-          for language in $LANGUAGES; do
-            echo "- Checking $language"
-            if [[ ! -f "my-db-$language-partial.zip" ]] ; then
-              echo "Missing a partial database bundle for $language"
-              exit 1
-            fi
-            if [[ ! -d "log" ]] ; then
-              echo "Missing database initialization logs"
-              exit 1
-            fi
-            if [[ ! "$language" == "go" ]] && [[ ! -d "$language/log" ]] ; then
-              echo "Missing logs for $language"
-              exit 1
-            fi
-          done
-        env:
-          GO111MODULE: auto

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

@@ -0,0 +1,102 @@
+# Checks logs, SARIF, and database bundle debug artifacts exist.
+name: PR Check - Debug artifact upload
+env:
+  GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }}
+on:
+  push:
+    branches:
+    - main
+    - releases/v*
+  pull_request:
+    types:
+    - opened
+    - synchronize
+    - reopened
+    - ready_for_review
+  schedule:
+    - cron: '0 5 * * *'
+  workflow_dispatch: {}
+
+defaults:
+  run:
+    shell: bash
+
+jobs:
+  upload-artifacts:
+    if: github.triggering_actor != 'dependabot[bot]'
+    strategy:
+      fail-fast: false
+      matrix:
+        version:
+        - stable-v2.20.3
+        - default
+        - linked
+        - nightly-latest
+    name: Upload debug artifacts
+    env:
+      CODEQL_ACTION_TEST_MODE: true
+    timeout-minutes: 45
+    permissions:
+      contents: read
+    runs-on: ubuntu-latest
+    steps:
+      - name: Check out repository
+        uses: actions/checkout@v5
+      - name: Prepare test
+        id: prepare-test
+        uses: ./.github/actions/prepare-test
+        with:
+          version: ${{ matrix.version }}
+      - uses: actions/setup-go@v6
+        with:
+          go-version: ^1.13.1
+      - uses: ./../action/init
+        id: init
+        with:
+          tools: ${{ steps.prepare-test.outputs.tools-url }}
+          debug: true
+          debug-artifact-name: my-debug-artifacts
+          debug-database-name: my-db
+          # We manually exclude Swift from the languages list here, as it is not supported on Ubuntu
+          languages: cpp,csharp,go,java,javascript,python,ruby
+      - name: Build code
+        run: ./build.sh
+      - uses: ./../action/analyze
+        id: analysis
+  download-and-check-artifacts:
+    name: Download and check debug artifacts
+    if: github.triggering_actor != 'dependabot[bot]'
+    needs: upload-artifacts
+    timeout-minutes: 45
+    permissions:
+      contents: read
+    runs-on: ubuntu-latest
+    steps:
+      - name: Download all artifacts
+        uses: actions/download-artifact@v5
+      - name: Check expected artifacts exist
+        run: |
+          VERSIONS="stable-v2.20.3 default linked nightly-latest"
+          LANGUAGES="cpp csharp go java javascript python"
+          for version in $VERSIONS; do
+            pushd "./my-debug-artifacts-${version//./}"
+            echo "Artifacts from version $version:"
+            for language in $LANGUAGES; do
+              echo "- Checking $language"
+              if [[ ! -f "$language.sarif" ]] ; then
+                echo "Missing a SARIF file for $language"
+                exit 1
+              fi
+              if [[ ! -f "my-db-$language.zip" ]] ; then
+                echo "Missing a database bundle for $language"
+                exit 1
+              fi
+              if [[ ! -d "$language/log" ]] ; then
+                echo "Missing logs for $language"
+                exit 1
+              fi
+            done
+            popd
+          done
+        env:
+          GO111MODULE: auto

.github/workflows/debug-artifacts.yml

@@ -1,97 +0,0 @@
-# Checks logs, SARIF, and database bundle debug artifacts exist.
-name: PR Check - Debug artifact upload
-env:
-  # Disable Kotlin analysis while it's incompatible with Kotlin 1.8, until we find a
-  # workaround for our PR checks.
-  CODEQL_EXTRACTOR_JAVA_AGENT_DISABLE_KOTLIN: true
-  GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }}
-on:
-  push:
-    branches:
-    - main
-    - releases/v*
-  pull_request:
-    types:
-    - opened
-    - synchronize
-    - reopened
-    - ready_for_review
-  workflow_dispatch: {}
-jobs:
-  upload-artifacts:
-    strategy:
-      matrix:
-        version:
-        - stable-20221211
-        - stable-20230418
-        - stable-v2.13.5
-        - stable-v2.14.6
-        - default
-        - latest
-        - nightly-latest
-    name: Upload debug artifacts
-    env:
-      CODEQL_ACTION_TEST_MODE: true
-    timeout-minutes: 45
-    runs-on: ubuntu-latest
-    steps:
-      - name: Check out repository
-        uses: actions/checkout@v4
-      - name: Prepare test
-        id: prepare-test
-        uses: ./.github/actions/prepare-test
-        with:
-          version: ${{ matrix.version }}
-      - uses: actions/setup-go@v5
-        with:
-          go-version: ^1.13.1
-      - uses: ./../action/init
-        id: init
-        with:
-          tools: ${{ steps.prepare-test.outputs.tools-url }}
-          debug: true
-          debug-artifact-name: my-debug-artifacts
-          debug-database-name: my-db
-      - uses: ./../action/.github/actions/setup-swift
-        with:
-          codeql-path: ${{ steps.init.outputs.codeql-path }}
-      - name: Build code
-        shell: bash
-        run: ./build.sh
-      - uses: ./../action/analyze
-        id: analysis
-  download-and-check-artifacts:
-    name: Download and check debug artifacts
-    needs: upload-artifacts
-    timeout-minutes: 45
-    runs-on: ubuntu-latest
-    steps:
-      - name: Download all artifacts
-        uses: actions/download-artifact@v3
-      - name: Check expected artifacts exist
-        shell: bash
-        run: |
-          VERSIONS="stable-20221211 stable-20230418 stable-v2.13.5 stable-v2.14.6 default latest nightly-latest"
-          LANGUAGES="cpp csharp go java javascript python"
-          for version in $VERSIONS; do
-            pushd "./my-debug-artifacts-${version//./}"
-            echo "Artifacts from version $version:"
-            for language in $LANGUAGES; do
-              echo "- Checking $language"
-              if [[ ! -f "$language.sarif" ]] ; then
-                echo "Missing a SARIF file for $language"
-                exit 1
-              fi
-              if [[ ! -f "my-db-$language.zip" ]] ; then
-                echo "Missing a database bundle for $language"
-                exit 1
-              fi
-              if [[ ! -d "$language/log" ]] ; then
-                echo "Missing logs for $language"
-                exit 1
-              fi
-            done
-            popd
-          done
-        env:
-          GO111MODULE: auto

.github/workflows/expected-queries-runs.yml

@@ -1,46 +0,0 @@
-name: Check queries that ran
-
-on:
-  push:
-    branches:
-    - main
-    - releases/v*
-  pull_request:
-    types:
-    - opened
-    - synchronize
-    - reopened
-    - ready_for_review
-  workflow_dispatch: {}
-
-jobs:
-  expected-queries:
-    name: Expected Queries Tests
-    env:
-      CODEQL_ACTION_TEST_MODE: true
-    timeout-minutes: 45
-    runs-on: ubuntu-latest
-    steps:
-    - name: Check out repository
-      uses: actions/checkout@v4
-    - name: Prepare test
-      id: prepare-test
-      uses: ./.github/actions/prepare-test
-      with:
-        version: latest
-    - uses: ./../action/init
-      with:
-        languages: javascript
-        tools: ${{ steps.prepare-test.outputs.tools-url }}
-    - uses: ./../action/analyze
-      with:
-        output: ${{ runner.temp }}/results
-        upload-database: false
-        upload: never
-
-    - name: Check Sarif
-      uses: ./../action/.github/actions/check-sarif
-      with:
-        sarif-file: ${{ runner.temp }}/results/javascript.sarif
-        queries-run: js/incomplete-hostname-regexp,js/path-injection
-        queries-not-run: foo,bar

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

@@ -3,7 +3,7 @@
 #    tag
 # 2. Updates the `vN` tag to refer to this merge commit.
 # 3. Iff vN == vLatest, merges any changes from the release back into the main branch.
-#    Typically, this is two commits – one to update the version number and one to update dependencies.
+#    Typically, this is two commits – one to update the version number and one to rebuild.
 name: Tag release and merge back
 
 on:
@@ -18,14 +18,23 @@ on:
     branches:
       - releases/v*
 
+defaults:
+  run:
+    shell: bash
+
 jobs:
   merge-back:
     runs-on: ubuntu-latest
+    environment: Automation
     if: github.repository == 'github/codeql-action'
     env:
       BASE_BRANCH: "${{ github.event.inputs.baseBranch || 'main' }}"
       HEAD_BRANCH: "${{ github.head_ref || github.ref }}"
 
+    permissions:
+      contents: write # needed to create tags and push commits
+      pull-requests: write
+
     steps:
       - name: Dump environment
         run: env
@@ -35,10 +44,10 @@ jobs:
           GITHUB_CONTEXT: '${{ toJson(github) }}'
         run: echo "${GITHUB_CONTEXT}"
 
-      - uses: actions/checkout@v4
+      - uses: actions/checkout@v5
         with:
           fetch-depth: 0  # ensure we have all tags and can push commits
-      - uses: actions/setup-node@v4
+      - uses: actions/setup-node@v5
 
       - name: Update git config
         run: |
@@ -108,45 +117,43 @@ jobs:
           # - `--force` since we're overwriting the `vN` tag
           git push origin --atomic --force refs/tags/"${VERSION}" refs/tags/"${major_version_tag}"
 
-      - name: Create mergeback branch
-        if: ${{ steps.check.outputs.exists != 'true' && endsWith(github.ref_name, steps.getVersion.outputs.latest_release_branch) }}
+      - name: Prepare partial Changelog
         env:
+          PARTIAL_CHANGELOG: "${{ runner.temp }}/partial_changelog.md"
           VERSION: "${{ steps.getVersion.outputs.version }}"
-          NEW_BRANCH: "${{ steps.getVersion.outputs.newBranch }}"
-          GITHUB_TOKEN: "${{ secrets.GITHUB_TOKEN }}"
         run: |
-          set -exu
-          pr_title="Mergeback ${VERSION} ${HEAD_BRANCH} into ${BASE_BRANCH}"
-          pr_body=$(cat << EOF
-            This PR bumps the version number and updates the changelog after the ${VERSION} release.
+          python .github/workflows/script/prepare_changelog.py CHANGELOG.md "$VERSION" > $PARTIAL_CHANGELOG
 
-            Please do the following:
+          echo "::group::Partial CHANGELOG"
+          cat $PARTIAL_CHANGELOG
+          echo "::endgroup::"
 
-            - [ ] Remove and re-add the "Update dependencies" label to the PR to trigger just this workflow.
-            - [ ] Wait for the "Update dependencies" workflow to push a commit updating the dependencies.
-            - [ ] Mark the PR as ready for review to trigger the full set of PR checks.
-            - [ ] Approve and merge the PR. When merging the PR, make sure "Create a merge commit" is
-                  selected rather than "Squash and merge" or "Rebase and merge".
-          EOF
-          )
+      - name: Create mergeback branch and PR
+        if: ${{ steps.check.outputs.exists != 'true' && endsWith(github.ref_name, steps.getVersion.outputs.latest_release_branch) }}
+        uses: ./.github/actions/prepare-mergeback-branch
+        with:
+          base: "${{ env.BASE_BRANCH }}"
+          head: "${{ env.HEAD_BRANCH }}"
+          branch: "${{ steps.getVersion.outputs.newBranch }}"
+          version: "${{ steps.getVersion.outputs.version }}"
+          token: "${{ secrets.GITHUB_TOKEN }}"
 
-          # Update the version number ready for the next release
-          npm version patch --no-git-tag-version
+      - name: Generate token
+        uses: actions/create-github-app-token@v2.1.4
+        id: app-token
+        with:
+          app-id: ${{ vars.AUTOMATION_APP_ID }}
+          private-key: ${{ secrets.AUTOMATION_PRIVATE_KEY }}
 
-          # Update the changelog, adding a new version heading directly above the most recent existing one
-          awk '!f && /##/{print "'"## [UNRELEASED]\n\nNo user facing changes.\n"'"; f=1}1' CHANGELOG.md > temp && mv temp CHANGELOG.md
-          git add .
-          git commit -m "Update changelog and version after ${VERSION}"
-
-          git push origin "${NEW_BRANCH}"
-
-          # PR checks won't be triggered on PRs created by Actions. Therefore mark the PR as draft
-          # so that a maintainer can take the PR out of draft, thereby triggering the PR checks.
-          gh pr create \
-            --head "${NEW_BRANCH}" \
-            --base "${BASE_BRANCH}" \
-            --title "${pr_title}" \
-            --label "Update dependencies" \
-            --body "${pr_body}" \
-            --assignee "${GITHUB_ACTOR}" \
-            --draft
+      - name: Create the GitHub release
+        env:
+          PARTIAL_CHANGELOG: "${{ runner.temp }}/partial_changelog.md"
+          VERSION: "${{ steps.getVersion.outputs.version }}"
+          GH_TOKEN: ${{ steps.app-token.outputs.token }}
+        run: |
+          # Do not mark this release as latest. The most recent CLI release must be marked as latest.
+          gh release create \
+            "$VERSION" \
+            --latest=false \
+            --title "$VERSION" \
+            --notes-file "$PARTIAL_CHANGELOG"

.github/workflows/pr-checks.yml

@@ -2,117 +2,92 @@ name: PR Checks
 
 on:
   push:
-    branches: [main, releases/v*]
   pull_request:
     # Run checks on reopened draft PRs to support triggering PR checks on draft PRs that were opened
     # by other workflows.
     types: [opened, synchronize, reopened, ready_for_review]
   workflow_dispatch:
 
+defaults:
+  run:
+    shell: bash
+
 jobs:
-  check-js:
-    name: Check JS
-    runs-on: ubuntu-latest
-    timeout-minutes: 45
-
+  unit-tests:
+    name: Unit Tests
+    if: github.triggering_actor != 'dependabot[bot]'
     strategy:
+      fail-fast: false
       matrix:
-        node-types-version: [16.11, current] # run tests on 16.11 while CodeQL Action v2 is still supported
-
-    steps:
-      - name: Checkout
-        uses: actions/checkout@v4
-
-      - name: Lint
-        run: npm run-script lint
-
-      - name: Update version of @types/node
-        if: matrix.node-types-version != 'current'
-        env:
-          NODE_TYPES_VERSION: ${{ matrix.node-types-version }}
-        run: |
-          # Export `NODE_TYPES_VERSION` so it's available to jq
-          export NODE_TYPES_VERSION="${NODE_TYPES_VERSION}"
-          contents=$(jq '.devDependencies."@types/node" = env.NODE_TYPES_VERSION' package.json)
-          echo "${contents}" > package.json
-          # Usually we run `npm install` on macOS to ensure that we pick up macOS-only dependencies.
-          # However we're not checking in the updated lockfile here, so it's fine to run
-          # `npm install` on Linux.
-          npm install
-
-          if [ ! -z "$(git status --porcelain)" ]; then
-            git config --global user.email "github-actions@github.com"
-            git config --global user.name "github-actions[bot]"
-            # The period in `git add --all .` ensures that we stage deleted files too.
-            git add --all .
-            git commit -m "Use @types/node=${NODE_TYPES_VERSION}"
-          fi
-
-      - name: Check generated JS
-        run: .github/workflows/script/check-js.sh
-
-  check-node-modules:
-    name: Check modules up to date
-    runs-on: macos-latest
+        os: [ubuntu-latest, macos-latest, windows-latest]
+    permissions:
+      contents: read
+      security-events: write # needed to upload ESLint results
+    runs-on: ${{ matrix.os }}
     timeout-minutes: 45
 
     steps:
-      - uses: actions/checkout@v4
-      - name: Check node modules up to date
-        run: .github/workflows/script/check-node-modules.sh
+      - name: Prepare git (Windows)
+        if: runner.os == 'Windows'
+        run: git config --global core.autocrlf false
 
-  check-file-contents:
-    name: Check file contents
-    runs-on: ubuntu-latest
-    timeout-minutes: 45
+      - uses: actions/checkout@v5
 
-    steps:
-      - name: Checkout
-        uses: actions/checkout@v4
+      - name: Set up Node.js
+        uses: actions/setup-node@v5
+        with:
+          node-version: '20.x'
+          cache: 'npm'
 
       - name: Set up Python
-        uses: actions/setup-python@v5
+        uses: actions/setup-python@v6
         with:
           python-version: 3.11
 
       - name: Install dependencies
         run: |
-          python -m pip install --upgrade pip
-          # When updating this, update the autogenerated code header in `sync.py` too.
-          pip install ruamel.yaml==0.17.31
+          # Use the system Bash shell to ensure we can run commands like `npm ci`
+          # that are not available in the default shell on Windows.
+          npm config set script-shell bash
+          npm ci
+
+      - name: Verify compiled JS up to date
+        run: .github/workflows/script/check-js.sh
 
-      # Ensure the generated PR check workflows are up to date.
       - name: Verify PR checks up to date
         run: .github/workflows/script/verify-pr-checks.sh
 
-  npm-test:
-    name: Unit Test
-    needs: [check-js, check-node-modules]
-    strategy:
-      matrix:
-        os: [ubuntu-latest, macos-latest, windows-latest]
-    runs-on: ${{ matrix.os }}
-    timeout-minutes: 45
+      - name: Run unit tests
+        run: npm test
 
-    steps:
-      - uses: actions/checkout@v4
-      - name: npm test
-        run: |
-          # Run any commands referenced in package.json using Bash, otherwise
-          # we won't be able to find them on Windows.
-          npm config set script-shell bash
-          npm test
+      - name: Run pr-checks tests
+        working-directory: pr-checks
+        run: python -m unittest discover
+
+      - name: Lint
+        if: matrix.os != 'windows-latest'
+        run: npm run lint-ci
+
+      - name: Upload sarif
+        uses: github/codeql-action/upload-sarif@v3
+        if: matrix.os == 'ubuntu-latest'
+        with:
+          sarif_file: eslint.sarif
+          category: eslint
 
   check-node-version:
-    if: ${{ github.event.pull_request }}
+    if: github.event.pull_request && github.triggering_actor != 'dependabot[bot]'
     name: Check Action Node versions
     runs-on: ubuntu-latest
     timeout-minutes: 45
     env:
       BASE_REF: ${{ github.base_ref }}
 
+    permissions:
+      contents: read
+
     steps:
-      - uses: actions/checkout@v4
+      - uses: actions/checkout@v5
       - id: head-version
         name: Verify all Actions use the same Node version
         run: |
@@ -127,7 +102,7 @@ jobs:
       - id: checkout-base
         name: 'Backport: Check out base ref'
         if: ${{ startsWith(github.head_ref, 'backport-') }}
-        uses: actions/checkout@v4
+        uses: actions/checkout@v5
         with:
           ref: ${{ env.BASE_REF }}
 

.github/workflows/prepare-release.yml

@@ -0,0 +1,77 @@
+name: Prepare release
+on:
+  workflow_call:
+    outputs:
+      version:
+        description: "The version that is being released."
+        value: ${{ jobs.prepare.outputs.version }}
+      major_version:
+        description: "The major version of the release."
+        value: ${{ jobs.prepare.outputs.major_version }}
+      latest_tag:
+        description: "The most recent, existing release tag."
+        value: ${{ jobs.prepare.outputs.latest_tag }}
+      backport_source_branch:
+        description: "The release branch for the given tag."
+        value: ${{ jobs.prepare.outputs.backport_source_branch }}
+      backport_target_branches:
+        description: "JSON encoded list of branches to target with backports."
+        value: ${{ jobs.prepare.outputs.backport_target_branches }}
+
+  push:
+    paths:
+      - .github/workflows/prepare-release.yml
+
+defaults:
+  run:
+    shell: bash
+
+jobs:
+  prepare:
+    name: "Prepare release"
+    runs-on: ubuntu-latest
+    if: github.repository == 'github/codeql-action'
+
+    permissions:
+      contents: read
+
+    outputs:
+      version: ${{ steps.versions.outputs.version }}
+      major_version: ${{ steps.versions.outputs.major_version }}
+      latest_tag: ${{ steps.versions.outputs.latest_tag }}
+      backport_source_branch: ${{ steps.branches.outputs.backport_source_branch }}
+      backport_target_branches: ${{ steps.branches.outputs.backport_target_branches }}
+
+    steps:
+      - name: Checkout repository
+        uses: actions/checkout@v5
+        with:
+          fetch-depth: 0 # Need full history for calculation of diffs
+
+      - name: Configure runner for release
+        uses: ./.github/actions/release-initialise
+
+      - name: Get version tags
+        id: versions
+        run: |
+          VERSION="v$(jq '.version' -r 'package.json')"
+          echo "version=${VERSION}" >> $GITHUB_OUTPUT
+          MAJOR_VERSION=$(cut -d '.' -f1 <<< "${VERSION}")
+          echo "major_version=${MAJOR_VERSION}" >> $GITHUB_OUTPUT
+          LATEST_TAG=$(git tag --sort=-v:refname | grep -E '^v[0-9]+\.[0-9]+\.[0-9]+' | head -1)
+          echo "latest_tag=${LATEST_TAG}" >> $GITHUB_OUTPUT
+
+      - name: Determine older release branches
+        id: branches
+        uses: ./.github/actions/release-branches
+        with:
+          major_version: ${{ steps.versions.outputs.major_version }}
+          latest_tag: ${{ steps.versions.outputs.latest_tag }}
+
+      - name: Print release information
+        run: |
+          echo 'version: ${{ steps.versions.outputs.version }}'
+          echo 'major_version: ${{ steps.versions.outputs.major_version }}'
+          echo 'latest_tag: ${{ steps.versions.outputs.latest_tag }}'
+          echo 'backport_source_branch: ${{ steps.branches.outputs.backport_source_branch }}'
+          echo 'backport_target_branches: ${{ steps.branches.outputs.backport_target_branches }}'

.github/workflows/publish-immutable-action.yml

@@ -0,0 +1,39 @@
+name: 'Publish Immutable Action Version'
+
+on:
+  release:
+    types: [published]
+
+defaults:
+  run:
+    shell: bash
+
+jobs:
+  publish:
+    runs-on: ubuntu-latest
+    permissions:
+      contents: read
+      id-token: write
+      packages: write
+
+    steps:
+      - name: Check release name
+        id: check
+        env:
+          RELEASE_NAME: ${{ github.event.release.name }}
+        run: |
+          echo "Release name: ${{ github.event.release.name }}"
+          if [[ $RELEASE_NAME == v* ]]; then
+            echo "This is a CodeQL Action release. Create an Immutable Action"
+            echo "is-action-release=true" >> $GITHUB_OUTPUT
+          else
+            echo "This is a CodeQL Bundle release. Do not create an Immutable Action"
+            echo "is-action-release=false" >> $GITHUB_OUTPUT
+          fi
+      - name: Checking out
+        if: steps.check.outputs.is-action-release == 'true'
+        uses: actions/checkout@v5
+      - name: Publish
+        if: steps.check.outputs.is-action-release == 'true'
+        id: publish
+        uses: actions/publish-immutable-action@v0.0.4

.github/workflows/python-deps.yml

@@ -1,174 +0,0 @@
-name: Test Python Package Installation
-
-on:
-  push:
-    branches: [main, releases/v*]
-  pull_request:
-    # Run checks on reopened draft PRs to support triggering PR checks on draft PRs that were opened
-    # by other workflows.
-    types: [opened, synchronize, reopened, ready_for_review]
-    paths:
-      # Changes to this workflow.
-      - '.github/workflows/python-deps.yml'
-      # Changes to the Python package installation scripts and their tests.
-      - 'python-setup/**'
-      # Changes to the default CodeQL bundle version.
-      - '**/defaults.json'
-  schedule:
-    # Weekly on Monday.
-    - cron: '0 0 * * 1'
-  workflow_dispatch:
-
-jobs:
-  test-setup-python-scripts:
-    timeout-minutes: 45
-    runs-on: ${{ matrix.os }}
-    strategy:
-        fail-fast: false
-        matrix:
-          os: [ubuntu-20.04, ubuntu-22.04, macos-latest]
-          python_deps_type: [pipenv, poetry, requirements, setup_py]
-          python_version: [3]
-
-
-    env:
-      PYTHON_DEPS_TYPE: ${{ matrix.python_deps_type }}
-      PYTHON_VERSION: ${{ matrix.python_version }}
-
-    steps:
-    # Checks-out your repository under $GITHUB_WORKSPACE, so your job can access it
-    - uses: actions/checkout@v4
-
-    - name: Initialize CodeQL
-      uses: ./init
-      id: init
-      with:
-        tools: latest
-        languages: python
-        setup-python-dependencies: false
-
-    - name: Test Auto Package Installation
-      run: |
-        set -x
-        $GITHUB_WORKSPACE/python-setup/install_tools.sh
-
-        cd $GITHUB_WORKSPACE/python-setup/tests/${PYTHON_DEPS_TYPE}/requests-${PYTHON_VERSION}
-
-        case ${{ matrix.os }} in
-            ubuntu-20.04*)     basePath="/opt";;
-            ubuntu-22.04*)     basePath="/opt";;
-            macos-latest*)    basePath="/Users/runner";;
-        esac
-        echo ${basePath}
-
-        $GITHUB_WORKSPACE/python-setup/auto_install_packages.py "$(dirname ${{steps.init.outputs.codeql-path}})"
-    - name: Setup for extractor
-      run: |
-        echo $CODEQL_PYTHON
-        # only run if $CODEQL_PYTHON is set
-        if [ ! -z $CODEQL_PYTHON ]; then
-            $GITHUB_WORKSPACE/python-setup/tests/from_python_exe.py $CODEQL_PYTHON;
-        fi
-
-    - name: Verify packages installed
-      run: |
-        $GITHUB_WORKSPACE/python-setup/tests/check_requests.sh ${PYTHON_VERSION} 2.31.0
-
-  # This one shouldn't fail, but also won't install packages
-  test-setup-python-scripts-non-standard-location:
-    runs-on: ${{ matrix.os }}
-    strategy:
-        fail-fast: false
-        matrix:
-          os: [ubuntu-20.04, ubuntu-22.04, macos-latest]
-
-    steps:
-    # Checks-out your repository under $GITHUB_WORKSPACE, so your job can access it
-    - uses: actions/checkout@v4
-
-    - name: Initialize CodeQL
-      uses: ./init
-      id: init
-      with:
-        tools: latest
-        languages: python
-        setup-python-dependencies: false
-
-    - name: Test Auto Package Installation
-      run: |
-        set -x
-        $GITHUB_WORKSPACE/python-setup/install_tools.sh
-
-        cd $GITHUB_WORKSPACE/python-setup/tests/requirements/non-standard-location
-
-        case ${{ matrix.os }} in
-            ubuntu-20.04*)     basePath="/opt";;
-            ubuntu-22.04*)     basePath="/opt";;
-            macos-latest*)    basePath="/Users/runner";;
-        esac
-        echo ${basePath}
-
-        $GITHUB_WORKSPACE/python-setup/auto_install_packages.py "$(dirname ${{steps.init.outputs.codeql-path}})"
-
-    - name: Setup for extractor
-      run: |
-        echo $CODEQL_PYTHON
-        # only run if $CODEQL_PYTHON is set
-        if [ ! -z $CODEQL_PYTHON ]; then
-            $GITHUB_WORKSPACE/python-setup/tests/from_python_exe.py $CODEQL_PYTHON;
-        fi
-
-    - name: Verify packages installed
-      run: |
-        test -z $LGTM_INDEX_IMPORT_PATH
-
-  test-setup-python-scripts-windows:
-    runs-on: windows-latest
-    strategy:
-        fail-fast: false
-        matrix:
-          python_deps_type: [pipenv, poetry, requirements, setup_py]
-          python_version: [3]
-
-    env:
-      CODEQL_ACTION_TEST_MODE: true
-      PYTHON_DEPS_TYPE: ${{ matrix.python_deps_type }}
-      PYTHON_VERSION: ${{ matrix.python_version }}
-
-    steps:
-    # Checks-out your repository under $GITHUB_WORKSPACE, so your job can access it
-    - uses: actions/checkout@v4
-
-    - uses: actions/setup-python@v5
-      with:
-        python-version: ${{ matrix.python_version }}
-
-    - name: Initialize CodeQL
-      id: init
-      uses: ./init
-      with:
-        tools: latest
-        languages: python
-        setup-python-dependencies: false
-
-    - name: Test Auto Package Installation
-      env:
-        CODEQL_PATH: ${{ steps.init.outputs.codeql-path }}
-      run: |
-        $cmd = $Env:GITHUB_WORKSPACE + "\\python-setup\\install_tools.ps1"
-        powershell -File $cmd
-
-        cd $Env:GITHUB_WORKSPACE\\python-setup/tests/$Env:PYTHON_DEPS_TYPE/requests-$Env:PYTHON_VERSION
-        $codeql_dist = (get-item $Env:CODEQL_PATH).Directory.FullName
-        py -3 $Env:GITHUB_WORKSPACE\\python-setup\\auto_install_packages.py $codeql_dist
-
-    - name: Setup for extractor
-      run: |
-        echo $Env:CODEQL_PYTHON
-
-        py -3 $Env:GITHUB_WORKSPACE\\python-setup\\tests\\from_python_exe.py $Env:CODEQL_PYTHON
-
-    - name: Verify packages installed
-      run: |
-        $cmd = $Env:GITHUB_WORKSPACE + "\\python-setup\\tests\\check_requests.ps1"
-        powershell -File $cmd $Env:PYTHON_VERSION 2.31.0

.github/workflows/python312-windows.yml

@@ -12,17 +12,26 @@ on:
     - cron: '0 0 * * 1'
   workflow_dispatch:
 
+defaults:
+  run:
+    shell: bash
+
 jobs:
   test-setup-python-scripts:
+    if: github.triggering_actor != 'dependabot[bot]'
+    env:
+      CODEQL_ACTION_TEST_MODE: true
     timeout-minutes: 45
+    permissions:
+      contents: read
     runs-on: windows-latest
 
     steps:
-    - uses: actions/setup-python@v5
+    - uses: actions/setup-python@v6
       with:
         python-version: 3.12
 
-    - uses: actions/checkout@v4
+    - uses: actions/checkout@v5
 
     - name: Prepare test
       uses: ./.github/actions/prepare-test
@@ -32,11 +41,8 @@ jobs:
     - name: Initialize CodeQL
       uses: ./../action/init
       with:
-        tools: latest
+        tools: linked
         languages: python
 
     - name: Analyze
       uses: ./../action/analyze
-      with:
-        upload: false
-        upload-database: false

.github/workflows/query-filters.yml

@@ -11,21 +11,40 @@ on:
     - synchronize
     - reopened
     - ready_for_review
+  schedule:
+    - cron: '0 5 * * *'
   workflow_dispatch: {}
 
+defaults:
+  run:
+    shell: bash
+
 jobs:
   query-filters:
     name: Query Filters Tests
+    if: github.triggering_actor != 'dependabot[bot]'
     timeout-minutes: 45
     runs-on: ubuntu-latest
+    permissions:
+      contents: read # This permission is needed to allow the GitHub Actions workflow to read the contents of the repository.
     steps:
     - name: Check out repository
-      uses: actions/checkout@v4
+      uses: actions/checkout@v5
+
+    - name: Install Node.js
+      uses: actions/setup-node@v5
+      with:
+        node-version: 20.x
+        cache: npm
+
+    - name: Install dependencies
+      run: npm ci
+
     - name: Prepare test
       id: prepare-test
       uses: ./.github/actions/prepare-test
       with:
-        version: latest
+        version: linked
 
     - name: Check SARIF for default queries with Single include, Single exclude
       uses: ./../action/.github/actions/query-filter-test

.github/workflows/rebuild.yml

@@ -5,19 +5,32 @@ on:
     types: [labeled]
   workflow_dispatch:
 
+defaults:
+  run:
+    shell: bash
+
 jobs:
   rebuild:
     name: Rebuild Action
     runs-on: ubuntu-latest
-    if: github.event.label.name == 'Rebuild'
+    if: github.event.label.name == 'Rebuild' || github.event_name == 'workflow_dispatch'
 
+    env:
+      HEAD_REF: ${{ github.event.pull_request.head.ref || github.event.ref }}
+      BASE_BRANCH: ${{ github.event.pull_request.base.ref || 'main' }}
+
+    permissions:
+      contents: write # needed to push rebuilt commit
+      pull-requests: write # needed to comment on the PR
     steps:
       - name: Checkout
-        uses: actions/checkout@v4
+        uses: actions/checkout@v5
         with:
-          ref: ${{ github.event.pull_request.head.ref }}
+          fetch-depth: 0
+          ref: ${{ env.HEAD_REF }}
 
       - name: Remove label
+        if: github.event_name == 'pull_request'
         env:
           GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }}
           PR_NUMBER: ${{ github.event.pull_request.number }}
@@ -25,54 +38,103 @@ jobs:
           gh pr edit --repo github/codeql-action "$PR_NUMBER" \
             --remove-label "Rebuild"
 
+      - name: Configure git
+        run: |
+          git config --global user.email "41898282+github-actions[bot]@users.noreply.github.com"
+          git config --global user.name "github-actions[bot]"
+
       - name: Merge in changes from base branch
-        env:
-          BASE_BRANCH: ${{ github.event.pull_request.base.ref }}
+        id: merge
         run: |
           git fetch origin "$BASE_BRANCH"
 
           # Allow merge conflicts in `lib`, since rebuilding should resolve them.
-          git merge "origin/$BASE_BRANCH" || echo "Merge conflicts detected"
+          git merge "origin/$BASE_BRANCH" || echo "Merge conflicts detected, continuing."
+          MERGE_RESULT=$?
 
-          # Check for merge conflicts outside of `lib`. Disable git diff's trailing whitespace check
-          # since `node_modules/@types/semver/README.md` fails it.
-          if git -c core.whitespace=-trailing-space diff --check | grep --invert-match '^lib/'; then
-            echo "Merge conflicts detected outside of lib/ directory. Please resolve them manually."
-            git -c core.whitespace=-trailing-space diff --check | grep --invert-match '^lib/' || true
-            exit 1
+          if [ "$MERGE_RESULT" -ne 0 ]; then
+            echo "merge-in-progress=true" >> $GITHUB_OUTPUT
+
+            # Check for merge conflicts outside of `lib`. Disable git diff's trailing whitespace check
+            # since `node_modules/@types/semver/README.md` fails it.
+            if git -c core.whitespace=-trailing-space diff --check | grep --invert-match '^lib/'; then
+              echo "Merge conflicts were detected outside of the lib directory. Please resolve them manually."
+              git -c core.whitespace=-trailing-space diff --check | grep --invert-match '^lib/' || true
+              exit 1
+            fi
+
+            echo "No merge conflicts found outside the lib directory. We should be able to resolve all of" \
+              "these by rebuilding the Action."
           fi
 
       - name: Compile TypeScript
         run: |
-          npm install
+          npm ci
           npm run lint -- --fix
           npm run build
 
       - name: Set up Python
-        uses: actions/setup-python@v5
+        uses: actions/setup-python@v6
         with:
           python-version: 3.11
 
-      - name: Generate workflows
+      - name: Sync back version updates to generated workflows
+        # Only sync back versions on Dependabot update PRs
+        if: startsWith(env.HEAD_REF, 'dependabot/')
+        working-directory: pr-checks
+        run: |
+          python3 sync_back.py -v
+
+      - name: Generate workflows
+        working-directory: pr-checks
         run: |
-          cd pr-checks
           python -m pip install --upgrade pip
           pip install ruamel.yaml==0.17.31
           python3 sync.py
 
-      - name: Check for changes and push
+      - name: "Merge in progress: Finish merge and push"
+        if: steps.merge.outputs.merge-in-progress == 'true'
+        run: |
+          echo "Finishing merge and pushing changes."
+          git add --all
+          git commit --no-edit
+          git push
+
+      - name: "No merge in progress: Check for changes and push"
+        if: steps.merge.outputs.merge-in-progress != 'true'
+        id: push
+        run: |
+          if [ ! -z "$(git status --porcelain)" ]; then
+            echo "Changes detected, committing and pushing."
+            git add --all
+            # If the merge originally had conflicts, finish the merge.
+            # Otherwise, just commit the changes.
+            if git rev-parse --verify MERGE_HEAD >/dev/null 2>&1; then
+              echo "In progress merge detected, finishing it up."
+              git merge --continue
+            else
+              echo "No in-progress merge detected, committing changes."
+              git commit -m "Rebuild"
+            fi
+            echo "Pushing changes"
+            git push
+            echo "changes=true" >> $GITHUB_OUTPUT
+          else
+            echo "No changes detected, nothing to commit."
+          fi
+
+      - name: Notify about rebuild
+        if: >-
+          github.event_name == 'pull_request' &&
+            (
+              steps.merge.outputs.merge-in-progress == 'true' ||
+              steps.push.outputs.changes == 'true'
+            )
         env:
-          BRANCH: ${{ github.event.pull_request.head.ref }}
           GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }}
           PR_NUMBER: ${{ github.event.pull_request.number }}
         run: |
-          if [ ! -z "$(git status --porcelain)" ]; then
-            git config --global user.email "41898282+github-actions[bot]@users.noreply.github.com"
-            git config --global user.name "github-actions[bot]"
-            git commit -am "Rebuild"
-            git push origin "HEAD:$BRANCH"
-            echo "Pushed a commit to rebuild the Action." \
-              "Please mark the PR as ready for review to trigger PR checks." |
-              gh pr comment --body-file - --repo github/codeql-action "$PR_NUMBER"
-            gh pr ready --undo --repo github/codeql-action "$PR_NUMBER"
-          fi
+          echo "Pushed a commit to rebuild the Action." \
+            "Please mark the PR as ready for review to trigger PR checks." |
+            gh pr comment --body-file - --repo github/codeql-action "$PR_NUMBER"
+          gh pr ready --undo --repo github/codeql-action "$PR_NUMBER"

.github/workflows/rollback-release.yml

@@ -0,0 +1,182 @@
+name: Rollback release
+on:
+  # You can trigger this workflow via workflow dispatch to start a rollback.
+  # This will create a draft release that mirrors the release for `rollback-tag`.
+  workflow_dispatch:
+    inputs:
+      rollback-tag:
+        type: string
+        description: "The tag of an old release to roll-back to."
+        required: true
+  # Only for dry-runs of changes to the workflow.
+  push:
+    paths:
+      - .github/workflows/rollback-release.yml
+      - .github/actions/prepare-mergeback-branch/**
+
+defaults:
+  run:
+    shell: bash
+
+jobs:
+  prepare:
+    name: "Prepare release"
+    if: github.repository == 'github/codeql-action'
+
+    permissions:
+      contents: read
+
+    uses: ./.github/workflows/prepare-release.yml
+
+  rollback:
+    name: "Create rollback release"
+    if: github.repository == 'github/codeql-action'
+    runs-on: ubuntu-latest
+    timeout-minutes: 45
+
+    # Don't set the deployment environment for test runs
+    # The Actions token does not have permissions to push changes to workflow files.
+    # Since workflow files may change as part of a backport PR, we use the "Automation" environment for real runs to authenticate as a GitHub App and push these changes.
+    environment: ${{ github.event_name == 'workflow_dispatch' && 'Automation' || '' }}
+
+    needs:
+      - prepare
+
+    permissions:
+      contents: write # needed to push to the repo (tags and releases)
+      pull-requests: write # needed to create the mergeback PR
+
+    steps:
+      - name: Checkout repository
+        uses: actions/checkout@v5
+        with:
+          fetch-depth: 0 # Need full history for calculation of diffs
+
+      - name: Configure runner for release
+        uses: ./.github/actions/release-initialise
+
+      - name: Create tag for testing
+        if: github.event_name != 'workflow_dispatch'
+        run: git tag v0.0.0
+
+      # We start by preparing the mergeback branch, mainly so that we have the updated changelog
+      # readily available for the partial changelog that's needed for the release.
+      - name: Prepare mergeback branch
+        id: mergeback-branch
+        env:
+          BASE_BRANCH: ${{ (github.event_name == 'workflow_dispatch' && 'main') || github.ref_name }}
+          VERSION: ${{ needs.prepare.outputs.version }}
+        run: |
+          set -x
+
+          # Checkout the base branch, since we may be testing on a different branch
+          git checkout "$BASE_BRANCH"
+
+          # Generate a new branch name for the mergeback PR
+          short_sha="${GITHUB_SHA:0:8}"
+          NEW_BRANCH="mergeback/${VERSION}-to-${BASE_BRANCH}-${short_sha}"
+          echo "new-branch=${NEW_BRANCH}" >> $GITHUB_OUTPUT
+
+          # Create the mergeback branch
+          git checkout -b "${NEW_BRANCH}"
+
+      - name: Prepare rollback changelog
+        env:
+          NEW_CHANGELOG: "${{ runner.temp }}/new_changelog.md"
+          # We usually expect to checkout `inputs.rollback-tag` (required for `workflow_dispatch`),
+          # but use `v0.0.0` for testing.
+          ROLLBACK_TAG: ${{ inputs.rollback-tag || 'v0.0.0' }}
+          LATEST_TAG: ${{ needs.prepare.outputs.latest_tag }}
+          VERSION: "${{ needs.prepare.outputs.version }}"
+        run: |
+          python .github/workflows/script/rollback_changelog.py \
+            --target-version "${ROLLBACK_TAG:1}" \
+            --rollback-version "${LATEST_TAG:1}" \
+            --new-version "$VERSION" > $NEW_CHANGELOG
+
+          echo "::group::New CHANGELOG"
+          cat $NEW_CHANGELOG
+          echo "::endgroup::"
+
+      - name: Create tags
+        env:
+          # We usually expect to checkout `inputs.rollback-tag` (required for `workflow_dispatch`),
+          # but use `v0.0.0` for testing.
+          ROLLBACK_TAG: ${{ inputs.rollback-tag || 'v0.0.0' }}
+          RELEASE_TAG: ${{ needs.prepare.outputs.version }}
+          MAJOR_VERSION_TAG: ${{ needs.prepare.outputs.major_version }}
+        run: |
+          git checkout "refs/tags/${ROLLBACK_TAG}"
+          git tag --annotate "${RELEASE_TAG}" --message "${RELEASE_TAG}"
+          git tag --annotate "${MAJOR_VERSION_TAG}" --message "${MAJOR_VERSION_TAG}" --force
+
+      - name: Push tags
+        # skip when testing
+        if: github.event_name == 'workflow_dispatch'
+        env:
+          RELEASE_TAG: ${{ needs.prepare.outputs.version }}
+          MAJOR_VERSION_TAG: ${{ needs.prepare.outputs.major_version }}
+        run: |
+          git push origin --atomic --force refs/tags/"${RELEASE_TAG}" refs/tags/"${MAJOR_VERSION_TAG}"
+
+      - name: Prepare partial Changelog
+        env:
+          NEW_CHANGELOG: "${{ runner.temp }}/new_changelog.md"
+          PARTIAL_CHANGELOG: "${{ runner.temp }}/partial_changelog.md"
+          VERSION: "${{ needs.prepare.outputs.version }}"
+        run: |
+          python .github/workflows/script/prepare_changelog.py $NEW_CHANGELOG "$VERSION" > $PARTIAL_CHANGELOG
+
+          echo "::group::Partial CHANGELOG"
+          cat $PARTIAL_CHANGELOG
+          echo "::endgroup::"
+
+      - name: Generate token
+        if: github.event_name == 'workflow_dispatch'
+        uses: actions/create-github-app-token@v2.1.4
+        id: app-token
+        with:
+          app-id: ${{ vars.AUTOMATION_APP_ID }}
+          private-key: ${{ secrets.AUTOMATION_PRIVATE_KEY }}
+
+      - name: Create the rollback release
+        if: github.event_name == 'workflow_dispatch'
+        env:
+          PARTIAL_CHANGELOG: "${{ runner.temp }}/partial_changelog.md"
+          VERSION: "${{ needs.prepare.outputs.version }}"
+          GH_TOKEN: ${{ steps.app-token.outputs.token }}
+          RELEASE_URL: "${{ github.server_url }}/${{ github.repository }}/releases/tag/${{ needs.prepare.outputs.version }}"
+        run: |
+          set -exu
+
+          # Do not mark this release as latest. The most recent bundle release must be marked as latest.
+          # Set as a draft to give us an opportunity to review the rollback release.
+          gh release create \
+            "$VERSION" \
+            --latest=false \
+            --draft \
+            --title "$VERSION" \
+            --notes-file "$PARTIAL_CHANGELOG"
+
+          echo "Created draft rollback release at $RELEASE_URL" >> $GITHUB_STEP_SUMMARY
+
+      - name: Update changelog
+        env:
+          NEW_CHANGELOG: "${{ runner.temp }}/new_changelog.md"
+          NEW_BRANCH: "${{ steps.mergeback-branch.outputs.new-branch }}"
+        run: |
+          git checkout "${NEW_BRANCH}"
+          mv ${NEW_CHANGELOG} CHANGELOG.md
+
+      - name: Create mergeback branch and PR
+        uses: ./.github/actions/prepare-mergeback-branch
+        with:
+          base: "main"
+          head: ""
+          branch: "${{ steps.mergeback-branch.outputs.new-branch }}"
+          version: "${{ needs.prepare.outputs.version }}"
+          token: "${{ secrets.GITHUB_TOKEN }}"
+          # Setting this to `true` for non-workflow_dispatch events will
+          # still push the `branch`, but won't create a corresponding PR
+          dry-run: "${{ github.event_name != 'workflow_dispatch' }}"
+

.github/workflows/script/check-js.sh

@@ -7,7 +7,7 @@ if [ ! -z "$(git status --porcelain)" ]; then
     >&2 echo "Failed: Repo should be clean before testing!"
     exit 1
 fi
-# Wipe the lib directory incase there are extra unnecessary files in there
+# Wipe the lib directory in case there are extra unnecessary files in there
 rm -rf lib
 # Generate the JavaScript files
 npm run-script build

.github/workflows/script/check-node-modules.sh

@@ -1,20 +0,0 @@
-#!/bin/bash
-set -eu
-
-# Sanity check that repo is clean to start with
-if [ ! -z "$(git status --porcelain)" ]; then
-    # If we get a fail here then this workflow needs attention...
-    >&2 echo "Failed: Repo should be clean before testing!"
-    exit 1
-fi
-
-"$(dirname "$0")/update-node-modules.sh" check-only
-
-# Check that repo is still clean
-if [ ! -z "$(git status --porcelain)" ]; then
-    # If we get a fail here then the PR needs attention
-    >&2 echo "Failed: node_modules are not up to date. Add the 'Update dependencies' label to your PR to update them. Note it is important that node modules are updated on macOS and not any other operating system as there is one dependency (fsevents) that is needed for macOS and may not be installed if dependencies are updated on a Windows or Linux machine."
-    git status
-    exit 1
-fi
-echo "Success: node_modules are up to date"

.github/workflows/script/prepare_changelog.py

@@ -0,0 +1,37 @@
+import os
+import sys
+
+EMPTY_CHANGELOG = 'No changes.\n\n'
+
+# Prepare the changelog for the new release
+# This function will extract the part of the changelog that
+# we want to include in the new release.
+def extract_changelog_snippet(changelog_file, version_tag):
+  output = ''
+  if (not os.path.exists(changelog_file)):
+    output = EMPTY_CHANGELOG
+
+  else:
+    with open(changelog_file, 'r') as f:
+      lines = f.readlines()
+
+      # Include everything up to, but excluding the second heading
+      found_first_section = False
+      for i, line in enumerate(lines):
+        if line.startswith('## '):
+          if found_first_section:
+            break
+          found_first_section = True
+        output += line
+
+  output += f"See the full [CHANGELOG.md](https://github.com/github/codeql-action/blob/{version_tag}/CHANGELOG.md) for more information."
+
+  return output
+
+
+if len(sys.argv) < 3:
+  raise Exception('Expecting argument: changelog_file version_tag')
+changelog_file = sys.argv[1]
+version_tag = sys.argv[2]
+
+print(extract_changelog_snippet(changelog_file, version_tag))

.github/workflows/script/rollback_changelog.py

@@ -0,0 +1,62 @@
+import datetime
+import os
+import argparse
+
+EMPTY_CHANGELOG = """# CodeQL Action Changelog
+
+"""
+
+def get_today_string():
+  today = datetime.datetime.today()
+  return '{:%d %b %Y}'.format(today)
+
+# Include everything up to and after the first heading,
+# but not the first heading and body.
+def drop_unreleased_section(lines: list[str]):
+  before_first_section = ''
+  after_first_section = ''
+  found_first_section = False
+  skipped_first_section = False
+
+  for i, line in enumerate(lines):
+    if line.startswith('## ') and not found_first_section:
+      found_first_section = True
+    elif line.startswith('## ') and found_first_section:
+      skipped_first_section = True
+
+    if not found_first_section:
+      before_first_section += line
+    if skipped_first_section:
+      after_first_section += line
+
+  return (before_first_section, after_first_section)
+
+def update_changelog(target_version, rollback_version, new_version):
+  before_first_section = EMPTY_CHANGELOG
+  after_first_section = ''
+
+  if (os.path.exists('CHANGELOG.md')):
+    with open('CHANGELOG.md', 'r') as f:
+      (before_first_section, after_first_section) = drop_unreleased_section(f.readlines())
+
+  newHeader = f'## {new_version} - {get_today_string()}\n'
+
+  print(before_first_section, end="")
+  print(newHeader)
+  print(f"This release rolls back {rollback_version} due to issues with that release. It is identical to {target_version}.\n")
+  print(after_first_section)
+
+# We expect three version strings as input:
+#
+# - target_version: the version that we are re-releasing as `new_version`
+# - rollback_version: the version that we are rolling back, typically the one that followed `target_version`
+# - new_version: the new version that we are releasing `target_version` as, typically the one that follows `rollback_version`
+#
+# Example: python3 .github/workflows/script/rollback_changelog.py --target-version "1.2.3" --rollback-version "1.2.4" --new-version "1.2.5"
+parser = argparse.ArgumentParser(description="Update CHANGELOG.md for a rollback release.")
+parser.add_argument("--target-version", "-t", required=True, help="Version to re-release as new_version.")
+parser.add_argument("--rollback-version", "-r", required=True, help="Version being rolled back.")
+parser.add_argument("--new-version", "-n", required=True, help="New version to publish for target_version.")
+args = parser.parse_args()
+
+update_changelog(args.target_version, args.rollback_version, args.new_version)

.github/workflows/script/update-node-modules.sh

@@ -1,18 +0,0 @@
-if [ "$1" != "update" && "$1" != "check-only" ]; then
-    >&2 echo "Failed: Invalid argument. Must be 'update' or 'check-only'"
-    exit 1
-fi
-
-sudo npm install --force -g npm@9.2.0
-
-# clean the npm cache to ensure we don't have any files owned by root
-sudo npm cache clean --force
-
-if [ "$1" = "update" ]; then
-    npm install
-fi
-
-# Reinstall modules and then clean to remove absolute paths
-# Use 'npm ci' instead of 'npm install' as this is intended to be reproducible
-npm ci
-npm run removeNPMAbsolutePaths

.github/workflows/script/update-required-checks.sh

@@ -1,6 +1,7 @@
 #!/usr/bin/env bash
 # Update the required checks based on the current branch.
-# Typically, this will be main.
+
+set -euo pipefail
 
 SCRIPT_DIR="$( cd "$( dirname "${BASH_SOURCE[0]}" )" >/dev/null 2>&1 && pwd )"
 REPO_DIR="$(dirname "$SCRIPT_DIR")"
@@ -27,11 +28,17 @@ fi
 
 echo "Getting checks for $GITHUB_SHA"
 
-# Ignore any checks with "https://", CodeQL, LGTM, and Update checks.
-CHECKS="$(gh api repos/github/codeql-action/commits/"${GITHUB_SHA}"/check-runs --paginate | jq --slurp --compact-output --raw-output '[.[].check_runs | .[].name | select(contains("https://") or . == "CodeQL" or . == "Dependabot" or . == "check-expected-release-files" or contains("Update") or contains("update") or contains("test-setup-python-scripts") | not)] | unique | sort')"
+# Ignore any checks with "https://", CodeQL, LGTM, Update, and ESLint checks.
+CHECKS="$(gh api repos/github/codeql-action/commits/"${GITHUB_SHA}"/check-runs --paginate | jq --slurp --compact-output --raw-output '[.[].check_runs.[] | select(.conclusion != "skipped") | .name | select(contains("https://") or . == "CodeQL" or . == "Dependabot" or . == "check-expected-release-files" or contains("Update") or contains("ESLint") or contains("update") or contains("test-setup-python-scripts") | not)] | unique | sort')"
 
 echo "$CHECKS" | jq
 
+# Fail if there are no checks
+if [ -z "$CHECKS" ] || [ "$(echo "$CHECKS" | jq '. | length')" -eq 0 ]; then
+  echo "No checks found for $GITHUB_SHA"
+  exit 1
+fi
+
 echo "{\"contexts\": ${CHECKS}}" > checks.json
 
 echo "Updating main"

.github/workflows/script/verify-pr-checks.sh

@@ -12,7 +12,7 @@ fi
 rm -rf .github/workflows/__*
 
 # Generate the PR checks
-cd pr-checks && python3 sync.py
+pr-checks/sync.sh
 
 # Check that repo is still clean
 if [ ! -z "$(git status --porcelain)" ]; then

.github/workflows/test-codeql-bundle-all.yml

@@ -2,9 +2,6 @@ name: 'PR Check - CodeQL Bundle All'
 env:
   GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }}
   GO111MODULE: auto
-  # Disable Kotlin analysis while it's incompatible with Kotlin 1.8, until we find a
-  # workaround for our PR checks.
-  CODEQL_EXTRACTOR_JAVA_AGENT_DISABLE_KOTLIN: 'true'
 on:
   push:
     branches:
@@ -16,23 +13,30 @@ on:
     - synchronize
     - reopened
     - ready_for_review
+  schedule:
+    - cron: '0 5 * * *'
   workflow_dispatch: {}
+defaults:
+  run:
+    shell: bash
 jobs:
   test-codeql-bundle-all:
     strategy:
+      fail-fast: false
       matrix:
         include:
         - os: ubuntu-latest
           version: nightly-latest
     name: 'CodeQL Bundle All'
+    if: github.triggering_actor != 'dependabot[bot]'
     permissions:
       contents: read
-      security-events: write
+      security-events: read
     timeout-minutes: 45
     runs-on: ${{ matrix.os }}
     steps:
     - name: Check out repository
-      uses: actions/checkout@v4
+      uses: actions/checkout@v5
     - name: Prepare test
       id: prepare-test
       uses: ./.github/actions/prepare-test
@@ -42,15 +46,11 @@ jobs:
     - id: init
       uses: ./../action/init
       with:
+        # We manually exclude Swift from the languages list here, as it is not supported on Ubuntu
+        languages: cpp,csharp,go,java,javascript,python,ruby
         tools: ${{ steps.prepare-test.outputs.tools-url }}
-    - uses: ./../action/.github/actions/setup-swift
-      with:
-        codeql-path: ${{ steps.init.outputs.codeql-path }}
     - name: Build code
-      shell: bash
       run: ./build.sh
     - uses: ./../action/analyze
-      with:
-        upload-database: false
     env:
       CODEQL_ACTION_TEST_MODE: true

.github/workflows/update-bundle.yml

@@ -13,10 +13,17 @@ on:
     # to filter pre-release attribute.
     types: [published]
 
+defaults:
+  run:
+    shell: bash
+
 jobs:
   update-bundle:
     if: github.event.release.prerelease && startsWith(github.event.release.tag_name, 'codeql-bundle-')
     runs-on: ubuntu-latest
+    permissions:
+      contents: write # needed to push commits
+      pull-requests: write # needed to create pull requests
     steps:
       - name: Dump environment
         run: env
@@ -26,13 +33,22 @@ jobs:
           GITHUB_CONTEXT: '${{ toJson(github) }}'
         run: echo "$GITHUB_CONTEXT"
 
-      - uses: actions/checkout@v4
+      - uses: actions/checkout@v5
 
       - name: Update git config
         run: |
           git config --global user.email "41898282+github-actions[bot]@users.noreply.github.com"
           git config --global user.name "github-actions[bot]"
 
+      - name: Set up Node.js
+        uses: actions/setup-node@v5
+        with:
+          node-version: '20.x'
+          cache: 'npm'
+
+      - name: Install dependencies
+        run: npm ci
+
       - name: Update bundle
         uses: ./.github/actions/update-bundle
 
@@ -54,7 +70,7 @@ jobs:
           cli_version=$(jq -r '.cliVersion' src/defaults.json)
           pr_url=$(gh pr create \
             --title "Update default bundle to $cli_version" \
-            --body "This pull request updates the default CodeQL bundle, as used with \`tools: latest\` and on GHES, to $cli_version." \
+            --body "This pull request updates the default CodeQL bundle, as used with \`tools: linked\` and on GHES, to $cli_version." \
             --assignee "$GITHUB_ACTOR" \
             --draft \
           )