C#: Add some lambda flow tests for demo

.bazelrc

@@ -2,9 +2,6 @@ common --enable_platform_specific_config
 # because we use --override_module with `%workspace%`, the lock file is not stable
 common --lockfile_mode=off
 
-# Build release binaries by default, can be overwritten to in local.bazelrc and set to `fastbuild` or `dbg`
-build --compilation_mode opt
-
 # when building from this repository in isolation, the internal repository will not be found at ..
 # where `MODULE.bazel` looks for it. The following will get us past the module loading phase, so
 # that we can build things that do not rely on that
@@ -12,9 +9,6 @@ common --override_module=semmle_code=%workspace%/misc/bazel/semmle_code_stub
 
 build --repo_env=CC=clang --repo_env=CXX=clang++
 
-# print test output, like sembuild does.
-# Set to `errors` if this is too verbose.
-test --test_output all
 # we use transitions that break builds of `...`, so for `test` to work with that we need the following
 test --build_tests_only
 
@@ -29,14 +23,6 @@ common --registry=file:///%workspace%/misc/bazel/registry
 common --registry=https://bcr.bazel.build
 
 common --@rules_dotnet//dotnet/settings:strict_deps=false
-
-# Reduce this eventually to empty, once we've fixed all our usages of java, and https://github.com/bazel-contrib/rules_go/issues/4193 is fixed
-common --incompatible_autoload_externally="+@rules_java,+@rules_shell"
-
-build --java_language_version=17
-build --tool_java_language_version=17
-build --tool_java_runtime_version=remotejdk_17
-build --java_runtime_version=remotejdk_17
-build --@rules_python//python/config_settings:python_version=3.12
+common --experimental_isolated_extension_usages
 
 try-import %workspace%/local.bazelrc

.bazelrc.internal

@@ -8,5 +8,4 @@ common --registry=https://bcr.bazel.build
 # its implementation packages without providing any code itself.
 # We either can depend on internal implementation details, or turn of strict deps.
 common --@rules_dotnet//dotnet/settings:strict_deps=false
-
-build --@rules_python//python/config_settings:python_version=3.12
+common --experimental_isolated_extension_usages

.bazelversion

@@ -1 +1 @@
-8.1.1
+8.0.0rc1

.devcontainer/Dockerfile.codespaces

@@ -1,7 +0,0 @@
-FROM mcr.microsoft.com/devcontainers/base:ubuntu-24.04
-
-USER root
-# Install needed packages according to https://codeql.github.com/docs/codeql-overview/system-requirements/
-# most come from the base image, but we need to install some additional ones
-RUN DEBIAN_FRONTEND=noninteractive apt update && apt install -y sudo man-db python3.12 npm unminimize
-RUN yes | unminimize

.devcontainer/devcontainer.json

@@ -7,10 +7,6 @@
     "ms-vscode.test-adapter-converter",
     "slevesque.vscode-zipexplorer"
   ],
-  "build": {
-    // Path is relative to the devcontainer.json file.
-    "dockerfile": "Dockerfile.codespaces"
-  },
   "settings": {
     "files.watcherExclude": {
       "**/target/**": true

.devcontainer/swift/Dockerfile

@@ -0,0 +1,9 @@
+# See here for image contents: https://github.com/microsoft/vscode-dev-containers/tree/v0.236.0/containers/cpp/.devcontainer/base.Dockerfile
+
+# [Choice] Debian / Ubuntu version (use Debian 11, Ubuntu 18.04/22.04 on local arm64/Apple Silicon): debian-11, debian-10, ubuntu-22.04, ubuntu-20.04, ubuntu-18.04
+FROM mcr.microsoft.com/vscode/devcontainers/cpp:0-ubuntu-22.04
+
+USER root
+ADD root.sh /tmp/root.sh
+ADD update-codeql.sh /usr/local/bin/update-codeql
+RUN bash /tmp/root.sh && rm /tmp/root.sh

.devcontainer/swift/devcontainer.json

@@ -0,0 +1,25 @@
+{
+	"extensions": [
+		"github.vscode-codeql",
+		"hbenl.vscode-test-explorer",
+		"ms-vscode.test-adapter-converter",
+		"slevesque.vscode-zipexplorer",
+		"ms-vscode.cpptools"
+	],
+	"settings": {
+		"files.watcherExclude": {
+			"**/target/**": true
+		},
+		"codeQL.runningQueries.memory": 2048
+	},
+	"build": {
+		"dockerfile": "Dockerfile",
+	},
+	"runArgs": [
+		"--cap-add=SYS_PTRACE",
+		"--security-opt",
+		"seccomp=unconfined"
+	],
+	"remoteUser": "vscode",
+	"onCreateCommand": ".devcontainer/swift/user.sh"
+}

.devcontainer/swift/root.sh

@@ -0,0 +1,34 @@
+set -xe
+
+BAZELISK_VERSION=v1.12.0
+BAZELISK_DOWNLOAD_SHA=6b0bcb2ea15bca16fffabe6fda75803440375354c085480fe361d2cbf32501db
+
+# install git lfs apt source
+curl -s https://packagecloud.io/install/repositories/github/git-lfs/script.deb.sh | bash
+
+# install gh apt source
+(type -p wget >/dev/null || (sudo apt update && sudo apt-get install wget -y)) \
+&& sudo mkdir -p -m 755 /etc/apt/keyrings \
+&& wget -qO- https://cli.github.com/packages/githubcli-archive-keyring.gpg | sudo tee /etc/apt/keyrings/githubcli-archive-keyring.gpg > /dev/null \
+&& sudo chmod go+r /etc/apt/keyrings/githubcli-archive-keyring.gpg \
+&& echo "deb [arch=$(dpkg --print-architecture) signed-by=/etc/apt/keyrings/githubcli-archive-keyring.gpg] https://cli.github.com/packages stable main" | sudo tee /etc/apt/sources.list.d/github-cli.list > /dev/null \
+
+apt-get update
+export DEBIAN_FRONTEND=noninteractive
+apt-get -y install --no-install-recommends \
+    zlib1g-dev \
+    uuid-dev \
+    python3-distutils \
+    python3-pip \
+    bash-completion \
+    git-lfs \
+    gh
+
+# Install Bazel
+curl -fSsL -o /usr/local/bin/bazelisk https://github.com/bazelbuild/bazelisk/releases/download/${BAZELISK_VERSION}/bazelisk-linux-amd64
+echo "${BAZELISK_DOWNLOAD_SHA} */usr/local/bin/bazelisk" | sha256sum --check -
+chmod 0755 /usr/local/bin/bazelisk
+ln -s bazelisk /usr/local/bin/bazel
+
+# install latest codeql
+update-codeql

.devcontainer/swift/update-codeql.sh

@@ -0,0 +1,20 @@
+#!/bin/bash -e
+
+URL=https://github.com/github/codeql-cli-binaries/releases
+LATEST_VERSION=$(curl -L -s -H 'Accept: application/json' $URL/latest | sed -e 's/.*"tag_name":"\([^"]*\)".*/\1/')
+CURRENT_VERSION=v$(codeql version 2>/dev/null | sed -ne 's/.*release \([0-9.]*\)\./\1/p')
+if [[ $CURRENT_VERSION != $LATEST_VERSION ]]; then
+  if [[ $UID != 0 ]]; then
+    echo "update required, please run this script with sudo:"
+    echo "  sudo $0"
+    exit 1
+  fi
+  ZIP=$(mktemp codeql.XXXX.zip)
+  curl -fSqL -o $ZIP $URL/download/$LATEST_VERSION/codeql-linux64.zip
+  unzip -q $ZIP -d /opt
+  rm $ZIP
+  ln -sf /opt/codeql/codeql /usr/local/bin/codeql
+  echo installed version $LATEST_VERSION
+else
+  echo current version $CURRENT_VERSION is up-to-date
+fi

.devcontainer/swift/user.sh

@@ -0,0 +1,15 @@
+set -xe
+
+git lfs install
+
+# add the workspace to the codeql search path
+mkdir -p /home/vscode/.config/codeql
+echo "--search-path /workspaces/codeql" > /home/vscode/.config/codeql/config
+
+# create a swift extractor pack with the current state
+cd /workspaces/codeql
+bazel run swift/create-extractor-pack
+
+#install and set up pre-commit
+python3 -m pip install pre-commit --no-warn-script-location
+$HOME/.local/bin/pre-commit install

.gitattributes

@@ -86,5 +86,4 @@
 /misc/ripunzip/ripunzip-* filter=lfs diff=lfs merge=lfs -text
 
 # swift prebuilt resources
-/swift/third_party/resources/*.zip filter=lfs diff=lfs merge=lfs -text
-/swift/third_party/resources/*.tar.zst filter=lfs diff=lfs merge=lfs -text
+/swift/third_party/resource-dir/*.zip filter=lfs diff=lfs merge=lfs -text

.github/codeql/codeql-config.yml

@@ -4,13 +4,10 @@ queries:
   - uses: security-and-quality
 
 paths-ignore:
-  - '/actions/ql/test'
   - '/cpp/'
   - '/java/'
   - '/python/'
   - '/javascript/ql/test'
-  - '/javascript/ql/integration-tests'
   - '/javascript/extractor/tests'
-  - '/javascript/extractor/parser-tests'
-  - '/javascript/ql/src/'
-  - '/rust/ql'
+  - '/rust/ql/test'
+  - '/rust/ql/integration-tests'

.github/pull_request_template.md

@@ -0,0 +1,14 @@
+### Pull Request checklist
+
+#### All query authors
+
+- [ ] A change note is added if necessary. See [the documentation](https://github.com/github/codeql/blob/main/docs/change-notes.md) in this repository.
+- [ ] All new queries have appropriate `.qhelp`. See [the documentation](https://github.com/github/codeql/blob/main/docs/query-help-style-guide.md) in this repository.
+- [ ] QL tests are added if necessary. See [Testing custom queries](https://docs.github.com/en/code-security/codeql-cli/using-the-advanced-functionality-of-the-codeql-cli/testing-custom-queries) in the GitHub documentation.
+- [ ] New and changed queries have correct query metadata. See [the documentation](https://github.com/github/codeql/blob/main/docs/query-metadata-style-guide.md) in this repository.
+
+#### Internal query authors only
+
+- [ ] Autofixes generated based on these changes are valid, only needed if this PR makes significant changes to `.ql`, `.qll`, or `.qhelp` files. See [the documentation](https://github.com/github/codeql-team/blob/main/docs/best-practices/validating-autofix-for-query-changes.md) (internal access required).
+- [ ] Changes are validated [at scale](https://github.com/github/codeql-dca/) (internal access required).
+- [ ] Adding a new query? Consider also [adding the query to autofix](https://github.com/github/codeml-autofix/blob/main/docs/updating-query-support.md#adding-a-new-query-to-the-query-suite).

.github/workflows/build-ripunzip.yml

@@ -17,7 +17,7 @@ jobs:
     strategy:
       fail-fast: false
       matrix:
-        os: [ubuntu-22.04, macos-13, windows-2019]
+        os: [ubuntu-20.04, macos-13, windows-2019]
     runs-on: ${{ matrix.os }}
     steps:
       - uses: actions/checkout@v4

.github/workflows/check-qldoc.yml

@@ -30,8 +30,7 @@ jobs:
         run: |
           EXIT_CODE=0
           # TODO: remove the shared exception from the regex when coverage of qlpacks without dbschemes is supported
-          # TODO: remove the actions exception once https://github.com/github/codeql-team/issues/3656 is fixed
-          changed_lib_packs="$(git diff --name-only --diff-filter=ACMRT HEAD^ HEAD | { grep -Po '^(?!(shared|actions))[a-z]*/ql/lib' || true; } | sort -u)"
+          changed_lib_packs="$(git diff --name-only --diff-filter=ACMRT HEAD^ HEAD | { grep -Po '^(?!(shared))[a-z]*/ql/lib' || true; } | sort -u)"
           for pack_dir in ${changed_lib_packs}; do
             lang="${pack_dir%/ql/lib}"
             codeql generate library-doc-coverage --output="${RUNNER_TEMP}/${lang}-current.txt" --dir="${pack_dir}"

.github/workflows/codegen.yml

@@ -1,34 +0,0 @@
-name: Codegen
-
-on:
-  pull_request:
-    paths:
-      - "misc/bazel/**"
-      - "misc/codegen/**"
-      - "*.bazel*"
-      - .github/workflows/codegen.yml
-      - .pre-commit-config.yaml
-    branches:
-      - main
-      - rc/*
-      - codeql-cli-*
-
-permissions:
-  contents: read
-
-jobs:
-  codegen:
-    runs-on: ubuntu-latest
-    steps:
-      - uses: actions/checkout@v4
-      - uses: actions/setup-python@v4
-        with:
-          python-version-file: 'misc/codegen/.python-version'
-      - uses: pre-commit/action@646c83fcd040023954eafda54b4db0192ce70507
-        name: Check that python code is properly formatted
-        with:
-          extra_args: autopep8 --all-files
-      - name: Run codegen tests
-        shell: bash
-        run: |
-          bazel test //misc/codegen/...

.github/workflows/codeql-analysis.yml

@@ -18,10 +18,6 @@ on:
 
 jobs:
   CodeQL-Build:
-    strategy:
-      fail-fast: false
-      matrix:
-        language: ['actions', 'csharp']
 
     runs-on: ubuntu-latest
 
@@ -34,7 +30,7 @@ jobs:
     - name: Setup dotnet
       uses: actions/setup-dotnet@v4
       with:
-        dotnet-version: 9.0.100
+        dotnet-version: 8.0.101
 
     - name: Checkout repository
       uses: actions/checkout@v4
@@ -42,8 +38,9 @@ jobs:
     # Initializes the CodeQL tools for scanning.
     - name: Initialize CodeQL
       uses: github/codeql-action/init@main
+      # Override language selection by uncommenting this and choosing your languages
       with:
-        languages: ${{ matrix.language }}
+        languages: csharp
         config-file: ./.github/codeql/codeql-config.yml
 
     # Autobuild attempts to build any compiled languages  (C/C++, C#, or Java).

.github/workflows/compile-queries.yml

@@ -7,11 +7,6 @@ on:
       - "rc/*"
       - "codeql-cli-*"
   pull_request:
-    paths:
-      - '**.ql'
-      - '**.qll'
-      - '**/qlpack.yml'
-      - '**.dbscheme'
 
 permissions:
   contents: read
@@ -38,9 +33,9 @@ jobs:
         # run with --check-only if running in a PR (github.sha != main)
         if : ${{ github.event_name == 'pull_request' }}
         shell: bash
-        run: codeql query compile -q -j0 */ql/{src,examples} --keep-going --warnings=error --check-only --compilation-cache "${{ steps.query-cache.outputs.cache-dir }}" --compilation-cache-size=500 --ram=56000
+        run: codeql query compile -q -j0 */ql/{src,examples} --keep-going --warnings=error --check-only --compilation-cache "${{ steps.query-cache.outputs.cache-dir }}" --compilation-cache-size=500
       - name: compile queries - full
         # do full compile if running on main - this populates the cache
         if : ${{ github.event_name != 'pull_request' }}
         shell: bash
-        run: codeql query compile -q -j0 */ql/{src,examples} --keep-going --warnings=error --compilation-cache "${{ steps.query-cache.outputs.cache-dir }}" --compilation-cache-size=500 --ram=56000
+        run: codeql query compile -q -j0 */ql/{src,examples} --keep-going --warnings=error --compilation-cache "${{ steps.query-cache.outputs.cache-dir }}" --compilation-cache-size=500

.github/workflows/cpp-swift-analysis.yml

@@ -19,7 +19,7 @@ on:
 jobs:
   CodeQL-Build:
 
-    runs-on: ubuntu-24.04
+    runs-on: ubuntu-latest
 
     permissions:
       contents: read
@@ -38,15 +38,17 @@ jobs:
         languages: cpp
         config-file: ./.github/codeql/codeql-config.yml
 
-    - name: Install dependencies
+    - name: "[Ubuntu] Remove GCC 13 from runner image"
+      shell: bash
       run: |
+        sudo rm -f /etc/apt/sources.list.d/ubuntu-toolchain-r-ubuntu-test-jammy.list
         sudo apt-get update
-        sudo apt-get install -y uuid-dev
+        sudo apt-get install -y --allow-downgrades libc6=2.35-* libc6-dev=2.35-* libstdc++6=12.3.0-* libgcc-s1=12.3.0-*
 
     - name: "Build Swift extractor using Bazel"
       run: |
         bazel clean --expunge
-        bazel run //swift:install --nouse_action_cache --noremote_accept_cached --noremote_upload_local_results --spawn_strategy=local
+        bazel run //swift:create-extractor-pack --nouse_action_cache --noremote_accept_cached --noremote_upload_local_results --spawn_strategy=local
         bazel shutdown
 
     - name: Perform CodeQL Analysis

.github/workflows/csharp-qltest.yml

@@ -5,10 +5,8 @@ on:
     paths:
       - "csharp/**"
       - "shared/**"
-      - "misc/bazel/**"
       - .github/actions/fetch-codeql/action.yml
       - codeql-workspace.yml
-      - "MODULE.bazel"
     branches:
       - main
       - "rc/*"
@@ -16,11 +14,9 @@ on:
     paths:
       - "csharp/**"
       - "shared/**"
-      - "misc/bazel/**"
       - .github/workflows/csharp-qltest.yml
       - .github/actions/fetch-codeql/action.yml
       - codeql-workspace.yml
-      - "MODULE.bazel"
     branches:
       - main
       - "rc/*"
@@ -43,14 +39,14 @@ jobs:
       - name: Setup dotnet
         uses: actions/setup-dotnet@v4
         with:
-          dotnet-version: 9.0.100
+          dotnet-version: 8.0.101
       - name: Extractor unit tests
         run: |
           dotnet tool restore
-          dotnet test -p:RuntimeFrameworkVersion=9.0.0 extractor/Semmle.Util.Tests
-          dotnet test -p:RuntimeFrameworkVersion=9.0.0 extractor/Semmle.Extraction.Tests
-          dotnet test -p:RuntimeFrameworkVersion=9.0.0 autobuilder/Semmle.Autobuild.CSharp.Tests
-          dotnet test -p:RuntimeFrameworkVersion=9.0.0 autobuilder/Semmle.Autobuild.Cpp.Tests
+          dotnet test -p:RuntimeFrameworkVersion=8.0.1 extractor/Semmle.Util.Tests
+          dotnet test -p:RuntimeFrameworkVersion=8.0.1 extractor/Semmle.Extraction.Tests
+          dotnet test -p:RuntimeFrameworkVersion=8.0.1 autobuilder/Semmle.Autobuild.CSharp.Tests
+          dotnet test -p:RuntimeFrameworkVersion=8.0.1 autobuilder/Semmle.Autobuild.Cpp.Tests
         shell: bash
   stubgentest:
     runs-on: ubuntu-latest

.github/workflows/go-tests-other-os.yml

@@ -3,7 +3,6 @@ on:
   pull_request:
     paths:
       - "go/**"
-      - "!go/documentation/**"
       - "!go/ql/**" # don't run other-os if only ql/ files changed
       - .github/workflows/go-tests-other-os.yml
       - .github/actions/**

.github/workflows/go-tests-rtjo.yml

@@ -1,22 +0,0 @@
-name: "Go: Run RTJO Tests"
-on:
-  pull_request:
-    types:
-      - labeled
-
-permissions:
-  contents: read
-
-jobs:
-  test-linux:
-    if: "github.repository_owner == 'github' && github.event.label.name == 'Run: RTJO Language Tests'"
-    name: RTJO Test Linux (Ubuntu)
-    runs-on: ubuntu-latest-xl
-    steps:
-      - name: Check out code
-        uses: actions/checkout@v4
-      - name: Run tests
-        uses: ./go/actions/test
-        with:
-          run-code-checks: true
-          dynamic-join-order-mode: all

.github/workflows/go-tests.yml

@@ -3,7 +3,6 @@ on:
   push:
     paths:
       - "go/**"
-      - "!go/documentation/**"
       - "shared/**"
       - .github/workflows/go-tests.yml
       - .github/actions/**
@@ -14,7 +13,6 @@ on:
   pull_request:
     paths:
       - "go/**"
-      - "!go/documentation/**"      
       - "shared/**"
       - .github/workflows/go-tests.yml
       - .github/actions/**

.github/workflows/ql-for-ql-tests.yml

@@ -40,7 +40,7 @@ jobs:
             ql/target
           key: ${{ runner.os }}-${{ steps.os_version.outputs.version }}-qltest-cargo-${{ hashFiles('ql/rust-toolchain.toml', 'ql/**/Cargo.lock') }}
       - name: Check formatting
-        run: cd ql; cargo fmt -- --check
+        run: cd ql; cargo fmt --all -- --check
       - name: Build extractor
         run: |
           cd ql;

.github/workflows/ruby-build.yml

@@ -79,7 +79,7 @@ jobs:
           key: ${{ runner.os }}-${{ steps.os_version.outputs.version }}-ruby-rust-cargo-${{ hashFiles('ruby/extractor/rust-toolchain.toml', 'ruby/extractor/**/Cargo.lock') }}
       - name: Check formatting
         if: steps.cache-extractor.outputs.cache-hit != 'true'
-        run: cd extractor && cargo fmt -- --check
+        run: cd extractor && cargo fmt --all -- --check
       - name: Build
         if: steps.cache-extractor.outputs.cache-hit != 'true'
         run: cd extractor && cargo build --verbose

.github/workflows/ruby-qltest-rtjo.yml

@@ -1,40 +0,0 @@
-name: "Ruby: Run RTJO Language Tests"
-
-on:
-  pull_request:
-    types:
-      - opened
-      - synchronize
-      - reopened
-      - labeled
-
-env:
-  CARGO_TERM_COLOR: always
-
-defaults:
-  run:
-    working-directory: ruby
-
-permissions:
-  contents: read
-
-jobs:
-  qltest-rtjo:
-    if: "github.repository_owner == 'github' && github.event.label.name == 'Run: RTJO Language Tests'"
-    runs-on: ubuntu-latest-xl
-    strategy:
-      fail-fast: false
-    steps:
-      - uses: actions/checkout@v4
-      - uses: ./.github/actions/fetch-codeql
-      - uses: ./ruby/actions/create-extractor-pack
-      - name: Cache compilation cache
-        id: query-cache
-        uses: ./.github/actions/cache-query-compilation
-        with:
-          key: ruby-qltest
-      - name: Run QL tests
-        run: |
-          codeql test run --dynamic-join-order-mode=all --threads=0 --ram 50000 --search-path "${{ github.workspace }}" --check-databases --check-undefined-labels --check-unused-labels --check-repeated-labels --check-redefined-labels --check-use-before-definition --consistency-queries ql/consistency-queries ql/test --compilation-cache "${{ steps.query-cache.outputs.cache-dir }}"
-        env:
-          GITHUB_TOKEN: ${{ github.token }}

.github/workflows/rust.yml

@@ -23,48 +23,26 @@ permissions:
   contents: read
 
 jobs:
-  rust-ast-generator:
-    runs-on: ubuntu-latest
-    defaults:
-      run:
-        working-directory: rust/ast-generator
-    steps:
-      - name: Checkout
-        uses: actions/checkout@v4
-      - name: Inject sources
-        shell: bash
-        run: |
-          bazel run //rust/ast-generator:inject-sources
-      - name: Format
-        shell: bash
-        run: |
-          cargo fmt --check
-      - name: Compilation
-        shell: bash
-        run: cargo check
-      - name: Clippy
-        shell: bash
-        run: |
-          cargo clippy --no-deps -- -D warnings
   rust-code:
     runs-on: ubuntu-latest
-    defaults:
-      run:
-        working-directory: rust/extractor
     steps:
       - name: Checkout
         uses: actions/checkout@v4
       - name: Format
+        working-directory: rust/extractor
         shell: bash
         run: |
           cargo fmt --check
       - name: Compilation
+        working-directory: rust/extractor
         shell: bash
         run: cargo check
       - name: Clippy
+        working-directory: rust/extractor
         shell: bash
         run: |
-          cargo clippy --no-deps -- -D warnings
+          cargo clippy --fix
+          git diff --exit-code
   rust-codegen:
     runs-on: ubuntu-latest
     steps:

.github/workflows/swift.yml

@@ -18,39 +18,58 @@ on:
       - main
       - rc/*
       - codeql-cli-*
+  push:
+    paths:
+      - "swift/**"
+      - "misc/bazel/**"
+      - "misc/codegen/**"
+      - "shared/**"
+      - "*.bazel*"
+      - .github/workflows/swift.yml
+      - .github/actions/**
+      - codeql-workspace.yml
+      - .pre-commit-config.yaml
+      - "!**/*.md"
+      - "!**/*.qhelp"
+    branches:
+      - main
+      - rc/*
+      - codeql-cli-*
 
 permissions:
   contents: read
 
-defaults:
-  run:
-    shell: bash
-    working-directory: swift
-
 jobs:
-  build-and-test:
+  # not using a matrix as you cannot depend on a specific job in a matrix, and we want to start linux checks
+  # without waiting for the macOS build
+  build-and-test-macos:
     if: github.repository_owner == 'github'
-    strategy:
-      matrix:
-        runner: [ubuntu-latest, macos-13-xlarge]
-      fail-fast: false
-    runs-on: ${{ matrix.runner }}
+    runs-on: macos-13-xlarge
     steps:
       - uses: actions/checkout@v4
-      - name: Setup (Linux)
-        if: runner.os == 'Linux'
-        run: |
-          sudo apt-get update
-          sudo apt-get install -y uuid-dev zlib1g-dev
-      - name: Build Swift extractor
-        shell: bash
-        run: |
-          bazel run :install
-      - name: Run Swift tests
-        shell: bash
-        run: |
-          bazel test ... --test_tag_filters=-override --test_output=errors
+      - uses: ./swift/actions/build-and-test
+  build-and-test-linux:
+    if: github.repository_owner == 'github'
+    runs-on: ubuntu-latest-xl
+    steps:
+      - uses: actions/checkout@v4
+      - uses: ./swift/actions/build-and-test
+  qltests-linux:
+    if: github.repository_owner == 'github'
+    needs: build-and-test-linux
+    runs-on: ubuntu-latest-xl
+    steps:
+      - uses: actions/checkout@v4
+      - uses: ./swift/actions/run-ql-tests
+  qltests-macos:
+    if: ${{ github.repository_owner == 'github' && github.event_name == 'pull_request' }}
+    needs: build-and-test-macos
+    runs-on: macos-13-xlarge
+    steps:
+      - uses: actions/checkout@v4
+      - uses: ./swift/actions/run-ql-tests
   clang-format:
+    if : ${{ github.event_name == 'pull_request' }}
     runs-on: ubuntu-latest
     steps:
       - uses: actions/checkout@v4
@@ -59,9 +78,18 @@ jobs:
         with:
           extra_args: clang-format --all-files
   codegen:
+    if : ${{ github.event_name == 'pull_request' }}
     runs-on: ubuntu-latest
     steps:
       - uses: actions/checkout@v4
+      - uses: bazelbuild/setup-bazelisk@v2
+      - uses: actions/setup-python@v4
+        with:
+          python-version-file: 'swift/.python-version'
+      - uses: pre-commit/action@646c83fcd040023954eafda54b4db0192ce70507
+        name: Check that python code is properly formatted
+        with:
+          extra_args: autopep8 --all-files
       - uses: ./.github/actions/fetch-codeql
       - uses: pre-commit/action@646c83fcd040023954eafda54b4db0192ce70507
         name: Check that QL generated code was checked in
@@ -69,14 +97,15 @@ jobs:
           extra_args: swift-codegen --all-files
       - name: Generate C++ files
         run: |
-          bazel run codegen -- --generate=trap,cpp --cpp-output=$PWD/generated-cpp-files
+          bazel run //swift/codegen:codegen -- --generate=trap,cpp --cpp-output=$PWD/generated-cpp-files
       - uses: actions/upload-artifact@v4
         with:
           name: swift-generated-cpp-files
           path: generated-cpp-files/**
-  check-no-override:
+  database-upgrade-scripts:
+    if : ${{ github.event_name == 'pull_request' }}
     runs-on: ubuntu-latest
     steps:
       - uses: actions/checkout@v4
-      - name: Check that no override is present in load.bzl
-        run: bazel test ... --test_tag_filters=override --test_output=errors
+      - uses: ./.github/actions/fetch-codeql
+      - uses: ./swift/actions/database-upgrade-scripts

.github/workflows/tree-sitter-extractor-test.yml

@@ -32,17 +32,17 @@ jobs:
     steps:
       - uses: actions/checkout@v4
       - name: Check formatting
-        run: cargo fmt -- --check
+        run: cargo fmt --all -- --check
       - name: Run tests
         run: cargo test --verbose
   fmt:
-    runs-on: ubuntu-latest
+    runs-on: ubuntu-latest  
     steps:
       - uses: actions/checkout@v4
       - name: Check formatting
         run: cargo fmt --check
   clippy:
-    runs-on: ubuntu-latest
+    runs-on: ubuntu-latest  
     steps:
       - uses: actions/checkout@v4
       - name: Run clippy

.gitignore

@@ -8,7 +8,7 @@
 
 # qltest projects and artifacts
 *.actual
-*/ql/test*/**/*.testproj
+*/ql/test/**/*.testproj
 */ql/test/**/go.sum
 
 # Visual studio temporaries, except a file used by QL4VS

.pre-commit-config.yaml

@@ -72,7 +72,7 @@ repos:
 
       - id: rust-codegen
         name: Run Rust checked in code generation
-        files: ^misc/codegen/|^rust/(prefix\.dbscheme|schema/|codegen/|.*/generated/|ql/lib/(rust\.dbscheme$|codeql/rust/elements)|\.generated.list|ast-generator/)
+        files: ^misc/codegen/|^rust/(schema.py$|codegen/|.*/generated/|ql/lib/(rust\.dbscheme$|codeql/rust/elements)|\.generated.list)
         language: system
         entry: bazel run //rust/codegen -- --quiet
         pass_filenames: false

.vscode/tasks.json

@@ -38,104 +38,6 @@
                 "command": "${config:python.pythonPath}",
             },
             "problemMatcher": []
-        },
-        {
-            "label": "Create query change note",
-            "type": "process",
-            "command": "python3",
-            "args": [
-                "misc/scripts/create-change-note.py",
-                "${input:language}",
-                "src",
-                "${input:name}",
-                "${input:categoryQuery}"
-            ],
-            "options": {
-                "env": {
-                    "EDITOR": "code -r",
-                }
-            },
-            "presentation": {
-                "reveal": "never",
-                "close": true
-            },
-            "problemMatcher": []
-        },
-                {
-            "label": "Create library change note",
-            "type": "process",
-            "command": "python3",
-            "args": [
-                "misc/scripts/create-change-note.py",
-                "${input:language}",
-                "lib",
-                "${input:name}",
-                "${input:categoryLibrary}"
-            ],
-            "options": {
-                "env": {
-                    "EDITOR": "code -r"
-                }
-            },
-            "presentation": {
-                "reveal": "never",
-                "close": true
-            },
-            "problemMatcher": []
-        }
-    ],
-    "inputs": [
-        {
-            "type": "pickString",
-            "id": "language",
-            "description": "Language",
-            "options":
-            [
-                "actions",
-                "go",
-                "java",
-                "javascript",
-                "cpp",
-                "csharp",
-                "python",
-                "ruby",
-                "rust",
-                "swift",
-            ]
-        },
-        {
-            "type": "promptString",
-            "id": "name",
-            "description": "Short name (kebab-case)"
-        },
-        {
-            "type": "pickString",
-            "id": "categoryQuery",
-            "description": "Category (query change)",
-            "options":
-            [
-                "breaking",
-                "deprecated",
-                "newQuery",
-                "queryMetadata",
-                "majorAnalysis",
-                "minorAnalysis",
-                "fix",
-            ]
-        },
-                {
-            "type": "pickString",
-            "id": "categoryLibrary",
-            "description": "Category (library change)",
-            "options":
-            [
-                "breaking",
-                "deprecated",
-                "feature",
-                "majorAnalysis",
-                "minorAnalysis",
-                "fix",
-            ]
         }
     ]
 }

BUILD.bazel

@@ -1,5 +1 @@
-exports_files([
-    "LICENSE",
-    "Cargo.lock",
-    "Cargo.toml",
-])
+exports_files(["LICENSE"])

CODEOWNERS

@@ -1,4 +1,3 @@
-/actions/ @github/codeql-dynamic
 /cpp/ @github/codeql-c-analysis
 /csharp/ @github/codeql-csharp
 /csharp/autobuilder/Semmle.Autobuild.Cpp @github/codeql-c-extractor
@@ -8,16 +7,12 @@
 /javascript/ @github/codeql-javascript
 /python/ @github/codeql-python
 /ruby/ @github/codeql-ruby
-/rust/ @github/codeql-rust
 /swift/ @github/codeql-swift
 /misc/codegen/ @github/codeql-swift
 /java/kotlin-extractor/ @github/codeql-kotlin
 /java/ql/test-kotlin1/ @github/codeql-kotlin
 /java/ql/test-kotlin2/ @github/codeql-kotlin
 
-# Experimental CodeQL cryptography
-**/experimental/quantum/ @github/ps-codeql
-
 # CodeQL tools and associated docs
 /docs/codeql/codeql-cli/ @github/codeql-cli-reviewers
 /docs/codeql/codeql-for-visual-studio-code/ @github/codeql-vscode-reviewers
@@ -42,12 +37,8 @@ MODULE.bazel @github/codeql-ci-reviewers
 /.github/workflows/go-* @github/codeql-go
 /.github/workflows/ql-for-ql-* @github/codeql-ql-for-ql-reviewers
 /.github/workflows/ruby-* @github/codeql-ruby
-/.github/workflows/rust.yml @github/codeql-rust
 /.github/workflows/swift.yml @github/codeql-swift
 
 # Misc
 /misc/scripts/accept-expected-changes-from-ci.py @RasmusWL
 /misc/scripts/generate-code-scanning-query-list.py @RasmusWL
-
-# .devcontainer
-/.devcontainer/ @github/codeql-ci-reviewers

Cargo.toml

@@ -8,10 +8,9 @@ members = [
     "rust/extractor",
     "rust/extractor/macros",
     "rust/ast-generator",
-    "rust/autobuild",
 ]
 
 [patch.crates-io]
 # patch for build script bug preventing bazel build
 # see https://github.com/rust-lang/rustc_apfloat/pull/17
-rustc_apfloat = { git = "https://github.com/redsun82/rustc_apfloat.git", rev = "32968f16ef1b082243f9bf43a3fbd65c381b3e27" }
+rustc_apfloat = { git = "https://github.com/redsun82/rustc_apfloat.git", rev = "096d585100636bc2e9f09d7eefec38c5b334d47b" }

LICENSE

@@ -1,6 +1,6 @@
 MIT License
 
-Copyright (c) 2006-2025 GitHub, Inc.
+Copyright (c) 2006-2020 GitHub, Inc.
 
 Permission is hereby granted, free of charge, to any person obtaining a copy
 of this software and associated documentation files (the "Software"), to deal

MODULE.bazel

@@ -14,137 +14,61 @@ local_path_override(
 
 # see https://registry.bazel.build/ for a list of available packages
 
-bazel_dep(name = "platforms", version = "0.0.11")
-bazel_dep(name = "rules_go", version = "0.50.1")
+bazel_dep(name = "platforms", version = "0.0.10")
+bazel_dep(name = "rules_go", version = "0.50.0")
 bazel_dep(name = "rules_pkg", version = "1.0.1")
 bazel_dep(name = "rules_nodejs", version = "6.2.0-codeql.1")
-bazel_dep(name = "rules_python", version = "0.40.0")
-bazel_dep(name = "rules_shell", version = "0.3.0")
+bazel_dep(name = "rules_python", version = "0.36.0")
 bazel_dep(name = "bazel_skylib", version = "1.7.1")
-bazel_dep(name = "abseil-cpp", version = "20240116.1", repo_name = "absl")
+bazel_dep(name = "abseil-cpp", version = "20240116.0", repo_name = "absl")
 bazel_dep(name = "nlohmann_json", version = "3.11.3", repo_name = "json")
 bazel_dep(name = "fmt", version = "10.0.0")
 bazel_dep(name = "rules_kotlin", version = "2.0.0-codeql.1")
-bazel_dep(name = "gazelle", version = "0.40.0")
-bazel_dep(name = "rules_dotnet", version = "0.17.4")
+bazel_dep(name = "gazelle", version = "0.38.0")
+bazel_dep(name = "rules_dotnet", version = "0.16.1")
 bazel_dep(name = "googletest", version = "1.14.0.bcr.1")
-bazel_dep(name = "rules_rust", version = "0.58.0")
-bazel_dep(name = "zstd", version = "1.5.5.bcr.1")
+bazel_dep(name = "rules_rust", version = "0.52.2")
 
 bazel_dep(name = "buildifier_prebuilt", version = "6.4.0", dev_dependency = True)
 
-# Keep edition and version approximately in sync with internal repo.
-# the versions there are canonical, the versions here are used for CI in github/codeql, as well as for the vendoring of dependencies.
-RUST_EDITION = "2024"
-
-RUST_VERSION = "1.85.0"
-
-rust = use_extension("@rules_rust//rust:extensions.bzl", "rust")
-rust.toolchain(
-    edition = RUST_EDITION,
-    # We need those extra target triples so that we can build universal binaries on macos
-    extra_target_triples = [
-        "x86_64-apple-darwin",
-        "aarch64-apple-darwin",
+# crate_py but shortened due to Windows file path considerations
+cp = use_extension(
+    "@rules_rust//crate_universe:extension.bzl",
+    "crate",
+    isolate = True,
+)
+cp.from_cargo(
+    name = "py_deps",
+    cargo_lockfile = "//python/extractor/tsg-python:Cargo.lock",
+    manifests = [
+        "//python/extractor/tsg-python:Cargo.toml",
+        "//python/extractor/tsg-python/tsp:Cargo.toml",
     ],
-    versions = [RUST_VERSION],
 )
-use_repo(rust, "rust_toolchains")
+use_repo(cp, "py_deps")
 
-register_toolchains("@rust_toolchains//:all")
-
-# deps for python extractor
-# keep in sync by running `misc/bazel/3rdparty/update_cargo_deps.sh`
-py_deps = use_extension("//misc/bazel/3rdparty:py_deps_extension.bzl", "p")
-use_repo(
-    py_deps,
-    "vendor_py__anyhow-1.0.95",
-    "vendor_py__cc-1.2.14",
-    "vendor_py__clap-4.5.30",
-    "vendor_py__regex-1.11.1",
-    "vendor_py__tree-sitter-0.20.4",
-    "vendor_py__tree-sitter-graph-0.7.0",
+# deps for ruby+rust, but shortened due to windows file paths
+r = use_extension(
+    "@rules_rust//crate_universe:extension.bzl",
+    "crate",
+    isolate = True,
 )
-
-# deps for ruby+rust
-# keep in sync by running `misc/bazel/3rdparty/update_cargo_deps.sh`
-tree_sitter_extractors_deps = use_extension("//misc/bazel/3rdparty:tree_sitter_extractors_extension.bzl", "r")
-use_repo(
-    tree_sitter_extractors_deps,
-    "vendor_ts__anyhow-1.0.97",
-    "vendor_ts__argfile-0.2.1",
-    "vendor_ts__chalk-ir-0.100.0",
-    "vendor_ts__chrono-0.4.40",
-    "vendor_ts__clap-4.5.35",
-    "vendor_ts__dunce-1.0.5",
-    "vendor_ts__either-1.15.0",
-    "vendor_ts__encoding-0.2.33",
-    "vendor_ts__figment-0.10.19",
-    "vendor_ts__flate2-1.1.0",
-    "vendor_ts__glob-0.3.2",
-    "vendor_ts__globset-0.4.15",
-    "vendor_ts__itertools-0.14.0",
-    "vendor_ts__lazy_static-1.5.0",
-    "vendor_ts__mustache-0.9.0",
-    "vendor_ts__num-traits-0.2.19",
-    "vendor_ts__num_cpus-1.16.0",
-    "vendor_ts__proc-macro2-1.0.94",
-    "vendor_ts__quote-1.0.40",
-    "vendor_ts__ra_ap_base_db-0.0.273",
-    "vendor_ts__ra_ap_cfg-0.0.273",
-    "vendor_ts__ra_ap_hir-0.0.273",
-    "vendor_ts__ra_ap_hir_def-0.0.273",
-    "vendor_ts__ra_ap_hir_expand-0.0.273",
-    "vendor_ts__ra_ap_hir_ty-0.0.273",
-    "vendor_ts__ra_ap_ide_db-0.0.273",
-    "vendor_ts__ra_ap_intern-0.0.273",
-    "vendor_ts__ra_ap_load-cargo-0.0.273",
-    "vendor_ts__ra_ap_parser-0.0.273",
-    "vendor_ts__ra_ap_paths-0.0.273",
-    "vendor_ts__ra_ap_project_model-0.0.273",
-    "vendor_ts__ra_ap_span-0.0.273",
-    "vendor_ts__ra_ap_stdx-0.0.273",
-    "vendor_ts__ra_ap_syntax-0.0.273",
-    "vendor_ts__ra_ap_vfs-0.0.273",
-    "vendor_ts__rand-0.9.0",
-    "vendor_ts__rayon-1.10.0",
-    "vendor_ts__regex-1.11.1",
-    "vendor_ts__serde-1.0.219",
-    "vendor_ts__serde_json-1.0.140",
-    "vendor_ts__serde_with-3.12.0",
-    "vendor_ts__syn-2.0.100",
-    "vendor_ts__toml-0.8.20",
-    "vendor_ts__tracing-0.1.41",
-    "vendor_ts__tracing-flame-0.2.0",
-    "vendor_ts__tracing-subscriber-0.3.19",
-    "vendor_ts__tree-sitter-0.24.6",
-    "vendor_ts__tree-sitter-embedded-template-0.23.2",
-    "vendor_ts__tree-sitter-json-0.24.8",
-    "vendor_ts__tree-sitter-ql-0.23.1",
-    "vendor_ts__tree-sitter-ruby-0.23.1",
-    "vendor_ts__triomphe-0.1.14",
-    "vendor_ts__ungrammar-1.16.1",
-)
-
-http_archive = use_repo_rule("@bazel_tools//tools/build_defs/repo:http.bzl", "http_archive")
-
-# rust-analyzer sources needed by the rust ast-generator (see `rust/ast-generator/README.md`)
-RUST_ANALYZER_SRC_TAG = "2025-01-07"
-
-http_archive(
-    name = "rust-analyzer-src",
-    build_file = "//rust/ast-generator:BUILD.rust-analyzer-src.bazel",
-    integrity = "sha256-eo8mIaUafZL8LOM65bDIIIXw1rNQ/P/x5RK/XUtgo5g=",
-    patch_args = ["-p1"],
-    patches = [
-        "//rust/ast-generator:patches/rust-analyzer.patch",
+r.from_cargo(
+    name = "r",
+    cargo_lockfile = "//:Cargo.lock",
+    manifests = [
+        "//:Cargo.toml",
+        "//ruby/extractor:Cargo.toml",
+        "//rust/extractor:Cargo.toml",
+        "//rust/extractor/macros:Cargo.toml",
+        "//rust/ast-generator:Cargo.toml",
+        "//shared/tree-sitter-extractor:Cargo.toml",
     ],
-    strip_prefix = "rust-analyzer-%s" % RUST_ANALYZER_SRC_TAG,
-    url = "https://github.com/rust-lang/rust-analyzer/archive/refs/tags/%s.tar.gz" % RUST_ANALYZER_SRC_TAG,
 )
+use_repo(r, tree_sitter_extractors_deps = "r")
 
 dotnet = use_extension("@rules_dotnet//dotnet:extensions.bzl", "dotnet")
-dotnet.toolchain(dotnet_version = "9.0.100")
+dotnet.toolchain(dotnet_version = "8.0.101")
 use_repo(dotnet, "dotnet_toolchains")
 
 register_toolchains("@dotnet_toolchains//:all")
@@ -155,7 +79,7 @@ use_repo(csharp_main_extension, "paket.main")
 pip = use_extension("@rules_python//python/extensions:pip.bzl", "pip")
 pip.parse(
     hub_name = "codegen_deps",
-    python_version = "3.12",
+    python_version = "3.11",
     requirements_lock = "//misc/codegen:requirements_lock.txt",
 )
 use_repo(pip, "codegen_deps")
@@ -167,12 +91,10 @@ use_repo(
     swift_deps,
     "binlog",
     "picosha2",
-    "swift-prebuilt-linux",
-    "swift-prebuilt-linux-download-only",
-    "swift-prebuilt-macos",
-    "swift-prebuilt-macos-download-only",
-    "swift-resource-dir-linux",
-    "swift-resource-dir-macos",
+    "swift_prebuilt_darwin_x86_64",
+    "swift_prebuilt_linux",
+    "swift_toolchain_linux",
+    "swift_toolchain_macos",
 )
 
 node = use_extension("@rules_nodejs//nodejs:extensions.bzl", "node")
@@ -207,7 +129,6 @@ use_repo(
     "kotlin-compiler-2.0.0-RC1",
     "kotlin-compiler-2.0.20-Beta2",
     "kotlin-compiler-2.1.0-Beta1",
-    "kotlin-compiler-2.1.20-Beta1",
     "kotlin-compiler-embeddable-1.5.0",
     "kotlin-compiler-embeddable-1.5.10",
     "kotlin-compiler-embeddable-1.5.20",
@@ -222,7 +143,6 @@ use_repo(
     "kotlin-compiler-embeddable-2.0.0-RC1",
     "kotlin-compiler-embeddable-2.0.20-Beta2",
     "kotlin-compiler-embeddable-2.1.0-Beta1",
-    "kotlin-compiler-embeddable-2.1.20-Beta1",
     "kotlin-stdlib-1.5.0",
     "kotlin-stdlib-1.5.10",
     "kotlin-stdlib-1.5.20",
@@ -237,11 +157,10 @@ use_repo(
     "kotlin-stdlib-2.0.0-RC1",
     "kotlin-stdlib-2.0.20-Beta2",
     "kotlin-stdlib-2.1.0-Beta1",
-    "kotlin-stdlib-2.1.20-Beta1",
 )
 
 go_sdk = use_extension("@rules_go//go:extensions.bzl", "go_sdk")
-go_sdk.download(version = "1.24.0")
+go_sdk.download(version = "1.23.1")
 
 go_deps = use_extension("@gazelle//:extensions.bzl", "go_deps")
 go_deps.from_file(go_mod = "//go/extractor:go.mod")
@@ -267,6 +186,16 @@ lfs_files(
     executable = True,
 )
 
+lfs_files(
+    name = "swift-resource-dir-linux",
+    srcs = ["//swift/third_party/resource-dir:resource-dir-linux.zip"],
+)
+
+lfs_files(
+    name = "swift-resource-dir-macos",
+    srcs = ["//swift/third_party/resource-dir:resource-dir-macos.zip"],
+)
+
 register_toolchains(
     "@nodejs_toolchains//:all",
 )

actions/BUILD.bazel

@@ -2,8 +2,19 @@ load("//misc/bazel:pkg.bzl", "codeql_pack")
 
 package(default_visibility = ["//visibility:public"])
 
-codeql_pack(
-    name = "actions",
-    srcs = ["//actions/extractor"],
-    experimental = True,
-)
+[
+    codeql_pack(
+        name = "-".join(parts),
+        srcs = [
+            "//actions/extractor",
+        ],
+        pack_prefix = "/".join(parts),
+    )
+    for parts in (
+        [
+            "experimental",
+            "actions",
+        ],
+        ["actions"],
+    )
+]

actions/extractor/BUILD.bazel

@@ -4,9 +4,7 @@ codeql_pkg_files(
     name = "extractor",
     srcs = [
         "codeql-extractor.yml",
-        "//:LICENSE",
-    ],
-    exes = glob(["tools/**"]),
+    ] + glob(["tools/**"]),
     strip_prefix = strip_prefix.from_pkg(),
     visibility = ["//actions:__pkg__"],
 )

actions/extractor/tools/autobuild-impl.ps1

@@ -1,34 +1,21 @@
-# Note: We're adding the `reusable_workflows` subdirectories to proactively
-# record workflows that were called cross-repo, check them out locally,
-# and enable an interprocedural analysis across the workflow files.
-# These workflows follow the convention `.github/reusable_workflows/<nwo>/*.ya?ml`
-$DefaultPathFilters = @(
-    'exclude:**/*',
-    'include:.github/workflows/*.yml',
-    'include:.github/workflows/*.yaml',
-    'include:.github/reusable_workflows/**/*.yml',
-    'include:.github/reusable_workflows/**/*.yaml',
-    'include:**/action.yml',
-    'include:**/action.yaml'
-)
-
-if ($null -ne $env:LGTM_INDEX_FILTERS) {
-    Write-Output 'LGTM_INDEX_FILTERS set. Using the default filters together with the user-provided filters, and passing through to the JavaScript extractor.'
-    # Begin with the default path inclusions only,
-    # followed by the user-provided filters.
-    # If the user provided `paths`, those patterns override the default inclusions
-    # (because `LGTM_INDEX_FILTERS` will begin with `exclude:**/*`).
-    # If the user provided `paths-ignore`, those patterns are excluded.
-    $PathFilters = ($DefaultPathFilters -join "`n") + "`n" + $env:LGTM_INDEX_FILTERS
-    $env:LGTM_INDEX_FILTERS = $PathFilters
+if (($null -ne $env:LGTM_INDEX_INCLUDE) -or ($null -ne $env:LGTM_INDEX_EXCLUDE) -or ($null -ne $env:LGTM_INDEX_FILTERS)) {
+    Write-Output 'Path filters set. Passing them through to the JavaScript extractor.' 
 } else {
-    Write-Output 'LGTM_INDEX_FILTERS not set. Using the default filters, and passing through to the JavaScript extractor.'
+    Write-Output 'No path filters set. Using the default filters.'
+    $DefaultPathFilters = @(
+        'exclude:**/*',
+        'include:.github/workflows/**/*.yml',
+        'include:.github/workflows/**/*.yaml',
+        'include:**/action.yml',
+        'include:**/action.yaml'
+    )
+
     $env:LGTM_INDEX_FILTERS = $DefaultPathFilters -join "`n"
 }
 
 # Find the JavaScript extractor directory via `codeql resolve extractor`.
 $CodeQL = Join-Path $env:CODEQL_DIST 'codeql.exe'
-$env:CODEQL_EXTRACTOR_JAVASCRIPT_ROOT = &"$CodeQL" resolve extractor --language javascript
+$env:CODEQL_EXTRACTOR_JAVASCRIPT_ROOT = &$CodeQL resolve extractor --language javascript
 if ($LASTEXITCODE -ne 0) {
     throw 'Failed to resolve JavaScript extractor.'
 }
@@ -47,7 +34,7 @@ $env:CODEQL_EXTRACTOR_JAVASCRIPT_SOURCE_ARCHIVE_DIR = $env:CODEQL_EXTRACTOR_ACTI
 $env:CODEQL_EXTRACTOR_JAVASCRIPT_TRAP_DIR = $env:CODEQL_EXTRACTOR_ACTIONS_TRAP_DIR
 $env:CODEQL_EXTRACTOR_JAVASCRIPT_WIP_DATABASE = $env:CODEQL_EXTRACTOR_ACTIONS_WIP_DATABASE
 
-&"$JavaScriptAutoBuild"
+&$JavaScriptAutoBuild
 if ($LASTEXITCODE -ne 0) {
     throw "JavaScript autobuilder failed."
 }

actions/extractor/tools/autobuild.cmd

@@ -1,4 +1,3 @@
 @echo off
 rem All of the work is done in the PowerShell script
-echo "Running PowerShell script at '%~dp0autobuild-impl.ps1'"
-powershell.exe -File "%~dp0autobuild-impl.ps1"
+powershell.exe %~dp0autobuild-impl.ps1

actions/extractor/tools/autobuild.sh

@@ -2,43 +2,25 @@
 
 set -eu
 
-# Note: We're adding the `reusable_workflows` subdirectories to proactively
-# record workflows that were called cross-repo, check them out locally,
-# and enable an interprocedural analysis across the workflow files.
-# These workflows follow the convention `.github/reusable_workflows/<nwo>/*.ya?ml`
 DEFAULT_PATH_FILTERS=$(cat << END
 exclude:**/*
-include:.github/workflows/*.yml
-include:.github/workflows/*.yaml
-include:.github/reusable_workflows/**/*.yml
-include:.github/reusable_workflows/**/*.yaml
+include:.github/workflows/**/*.yml
+include:.github/workflows/**/*.yaml
 include:**/action.yml
 include:**/action.yaml
 END
 )
 
-if [ -n "${LGTM_INDEX_FILTERS:-}" ]; then
-    echo "LGTM_INDEX_FILTERS set. Using the default filters together with the user-provided filters, and passing through to the JavaScript extractor."
-    # Begin with the default path inclusions only,
-    # followed by the user-provided filters.
-    # If the user provided `paths`, those patterns override the default inclusions
-    # (because `LGTM_INDEX_FILTERS` will begin with `exclude:**/*`).
-    # If the user provided `paths-ignore`, those patterns are excluded.
-    PATH_FILTERS="$(cat << END
-${DEFAULT_PATH_FILTERS}
-${LGTM_INDEX_FILTERS}
-END
-)"
-    LGTM_INDEX_FILTERS="${PATH_FILTERS}"
-    export LGTM_INDEX_FILTERS
+if [ -n "${LGTM_INDEX_INCLUDE:-}" ] || [ -n "${LGTM_INDEX_EXCLUDE:-}" ] || [ -n "${LGTM_INDEX_FILTERS:-}" ] ; then
+    echo "Path filters set. Passing them through to the JavaScript extractor."
 else
-    echo "LGTM_INDEX_FILTERS not set. Using the default filters, and passing through to the JavaScript extractor."
+    echo "No path filters set. Using the default filters."
     LGTM_INDEX_FILTERS="${DEFAULT_PATH_FILTERS}"
     export LGTM_INDEX_FILTERS
 fi
 
 # Find the JavaScript extractor directory via `codeql resolve extractor`.
-CODEQL_EXTRACTOR_JAVASCRIPT_ROOT="$("${CODEQL_DIST}/codeql" resolve extractor --language javascript)"
+CODEQL_EXTRACTOR_JAVASCRIPT_ROOT="$($CODEQL_DIST/codeql resolve extractor --language javascript)"
 export CODEQL_EXTRACTOR_JAVASCRIPT_ROOT
 
 echo "Found JavaScript extractor at '${CODEQL_EXTRACTOR_JAVASCRIPT_ROOT}'."
@@ -54,4 +36,4 @@ env CODEQL_EXTRACTOR_JAVASCRIPT_DIAGNOSTIC_DIR="${CODEQL_EXTRACTOR_ACTIONS_DIAGN
     CODEQL_EXTRACTOR_JAVASCRIPT_SOURCE_ARCHIVE_DIR="${CODEQL_EXTRACTOR_ACTIONS_SOURCE_ARCHIVE_DIR}" \
     CODEQL_EXTRACTOR_JAVASCRIPT_TRAP_DIR="${CODEQL_EXTRACTOR_ACTIONS_TRAP_DIR}" \
     CODEQL_EXTRACTOR_JAVASCRIPT_WIP_DATABASE="${CODEQL_EXTRACTOR_ACTIONS_WIP_DATABASE}" \
-    "${JAVASCRIPT_AUTO_BUILD}"
+    ${JAVASCRIPT_AUTO_BUILD}

actions/ql/extensions/immutable-actions-list/ext/immutable_actions.yml

@@ -1,28 +0,0 @@
-extensions:
-  - addsTo:
-      pack: codeql/actions-all
-      extensible: immutableActionsDataModel
-    data:
-      - ["actions/checkout"]
-      - ["actions/cache"]
-      - ["actions/setup-node"]
-      - ["actions/upload-artifact"]
-      - ["actions/setup-python"]
-      - ["actions/download-artifact"]
-      - ["actions/github-script"]
-      - ["actions/setup-java"]
-      - ["actions/setup-go"]
-      - ["actions/upload-pages-artifact"]
-      - ["actions/deploy-pages"]
-      - ["actions/setup-dotnet"]
-      - ["actions/stale"]
-      - ["actions/labeler"]
-      - ["actions/create-github-app-token"]
-      - ["actions/configure-pages"]
-      - ["github/codeql-action/analyze"]
-      - ["github/codeql-action/autobuild"]
-      - ["github/codeql-action/init"]
-      - ["github/codeql-action/resolve-environment"]
-      - ["github/codeql-action/start-proxy"]
-      - ["github/codeql-action/upload-sarif"]
-      - ["octokit/request-action"]

actions/ql/extensions/immutable-actions-list/qlpack.yml

@@ -1,14 +0,0 @@
-# Model pack containing the list of known immutable actions. The Immutable Actions feature is not
-# yet released, so this pack will only be used within GitHub. Once the feature is available to
-# customers, we will move the contents of this pack back into the standard library pack.
-name: codeql/immutable-actions-list
-version: 0.0.1-dev
-library: true
-warnOnImplicitThis: true
-extensionTargets:
-  # We expect to need this model pack even after GA of Actions analysis, so make it compatible with
-  # all future prereleases plus 1.x.x. We should be able to remove this back before we need to
-  # bump the major version to 2.
-  codeql/actions-all: ">=0.4.3 <2.0.0"
-dataExtensions:
-- ext/**/*.yml

actions/ql/integration-tests/filters-default/actions.ql

@@ -1,5 +0,0 @@
-import actions
-
-from AstNode n
-where n instanceof Workflow or n instanceof CompositeAction
-select n

actions/ql/integration-tests/filters/actions.default-filters.expected

@@ -1,6 +0,0 @@
-| src/.github/action.yaml:1:1:11:32 | name: ' ... action' |
-| src/.github/actions/action-name/action.yml:1:1:11:32 | name: ' ... action' |
-| src/.github/workflows/workflow.yml:1:1:12:33 | name: A workflow |
-| src/action.yml:1:1:11:32 | name: ' ... action' |
-| src/excluded/action.yml:1:1:11:32 | name: ' ... action' |
-| src/included/action.yml:1:1:11:32 | name: ' ... action' |

actions/ql/integration-tests/filters/actions.paths-and-paths-ignore.expected

@@ -1,2 +0,0 @@
-| src/included/action.yml:1:1:11:32 | name: ' ... action' |
-| src/included/unreachable-workflow.yml:1:1:12:33 | name: A ... orkflow |

actions/ql/integration-tests/filters/actions.paths-ignore-only.expected

@@ -1,5 +0,0 @@
-| src/.github/action.yaml:1:1:11:32 | name: ' ... action' |
-| src/.github/actions/action-name/action.yml:1:1:11:32 | name: ' ... action' |
-| src/.github/workflows/workflow.yml:1:1:12:33 | name: A workflow |
-| src/action.yml:1:1:11:32 | name: ' ... action' |
-| src/included/action.yml:1:1:11:32 | name: ' ... action' |

actions/ql/integration-tests/filters/actions.paths-only.expected

@@ -1,2 +0,0 @@
-| src/included/action.yml:1:1:11:32 | name: ' ... action' |
-| src/included/unreachable-workflow.yml:1:1:12:33 | name: A ... orkflow |

actions/ql/integration-tests/filters/actions.ql

@@ -1,5 +0,0 @@
-import actions
-
-from AstNode n
-where n instanceof Workflow or n instanceof CompositeAction
-select n

actions/ql/integration-tests/filters/codeql-config.paths-and-paths-ignore.yml

@@ -1,4 +0,0 @@
-paths:
-  - 'included'
-paths-ignore:
-  - 'excluded'

actions/ql/integration-tests/filters/codeql-config.paths-ignore-only.yml

@@ -1,2 +0,0 @@
-paths-ignore:
-  - 'excluded'

actions/ql/integration-tests/filters/codeql-config.paths-only.yml

@@ -1,2 +0,0 @@
-paths:
-  - 'included'

actions/ql/integration-tests/filters/source_archive.default-filters.expected

@@ -1,6 +0,0 @@
-src/.github/action.yaml
-src/.github/actions/action-name/action.yml
-src/.github/workflows/workflow.yml
-src/action.yml
-src/excluded/action.yml
-src/included/action.yml

actions/ql/integration-tests/filters/source_archive.paths-and-paths-ignore.expected

@@ -1,3 +0,0 @@
-src/included/action.yml
-src/included/not-an-action.yml
-src/included/unreachable-workflow.yml

actions/ql/integration-tests/filters/source_archive.paths-ignore-only.expected

@@ -1,5 +0,0 @@
-src/.github/action.yaml
-src/.github/actions/action-name/action.yml
-src/.github/workflows/workflow.yml
-src/action.yml
-src/included/action.yml

actions/ql/integration-tests/filters/source_archive.paths-only.expected

@@ -1,3 +0,0 @@
-src/included/action.yml
-src/included/not-an-action.yml
-src/included/unreachable-workflow.yml

actions/ql/integration-tests/filters/src/.github/action.yaml

@@ -1,11 +0,0 @@
-name: 'A composite action'
-description: 'Do something'
-runs:
-  using: "composite"
-  steps:
-    - name: Print
-      run: echo "Hello world"
-      shell: bash
-
-    - name: Checkout
-      uses: actions/checkout@v4

actions/ql/integration-tests/filters/src/.github/actions/action-name/action.yml

@@ -1,11 +0,0 @@
-name: 'A composite action'
-description: 'Do something'
-runs:
-  using: "composite"
-  steps:
-    - name: Print
-      run: echo "Hello world"
-      shell: bash
-
-    - name: Checkout
-      uses: actions/checkout@v4

actions/ql/integration-tests/filters/src/.github/unreachable-workflow.yml

@@ -1,12 +0,0 @@
-name: An unreachable workflow
-on:
-  push:
-    branches:
-      - main
-
-jobs:
-  job:
-    runs-on: ubuntu-latest
-    steps:
-      - name: Checkout code
-        uses: actions/checkout@v4

actions/ql/integration-tests/filters/src/.github/workflows/workflow.yml

@@ -1,12 +0,0 @@
-name: A workflow
-on:
-  push:
-    branches:
-      - main
-
-jobs:
-  job:
-    runs-on: ubuntu-latest
-    steps:
-      - name: Checkout code
-        uses: actions/checkout@v4

actions/ql/integration-tests/filters/src/action.yml

@@ -1,11 +0,0 @@
-name: 'A composite action'
-description: 'Do something'
-runs:
-  using: "composite"
-  steps:
-    - name: Print
-      run: echo "Hello world"
-      shell: bash
-
-    - name: Checkout
-      uses: actions/checkout@v4

actions/ql/integration-tests/filters/src/excluded/action.yml

@@ -1,11 +0,0 @@
-name: 'A composite action'
-description: 'Do something'
-runs:
-  using: "composite"
-  steps:
-    - name: Print
-      run: echo "Hello world"
-      shell: bash
-
-    - name: Checkout
-      uses: actions/checkout@v4

actions/ql/integration-tests/filters/src/excluded/unreachable-workflow.yml

@@ -1,12 +0,0 @@
-name: An unreachable workflow
-on:
-  push:
-    branches:
-      - main
-
-jobs:
-  job:
-    runs-on: ubuntu-latest
-    steps:
-      - name: Checkout code
-        uses: actions/checkout@v4

actions/ql/integration-tests/filters/src/included/action.yml

@@ -1,11 +0,0 @@
-name: 'A composite action'
-description: 'Do something'
-runs:
-  using: "composite"
-  steps:
-    - name: Print
-      run: echo "Hello world"
-      shell: bash
-
-    - name: Checkout
-      uses: actions/checkout@v4

actions/ql/integration-tests/filters/src/included/not-an-action.yml

@@ -1 +0,0 @@
-name: 'Not an action, just a YAML file'

actions/ql/integration-tests/filters/src/included/unreachable-workflow.yml

@@ -1,12 +0,0 @@
-name: An unreachable workflow
-on:
-  push:
-    branches:
-      - main
-
-jobs:
-  job:
-    runs-on: ubuntu-latest
-    steps:
-      - name: Checkout code
-        uses: actions/checkout@v4

actions/ql/integration-tests/filters/src/unreachable-workflow.yml

@@ -1,12 +0,0 @@
-name: An unreachable workflow
-on:
-  push:
-    branches:
-      - main
-
-jobs:
-  job:
-    runs-on: ubuntu-latest
-    steps:
-      - name: Checkout code
-        uses: actions/checkout@v4

actions/ql/integration-tests/filters/test.py

@@ -1,18 +0,0 @@
-import pytest
-
-@pytest.mark.ql_test(expected=".default-filters.expected")
-def test_default_filters(codeql, actions, check_source_archive):
-    check_source_archive.expected_suffix = ".default-filters.expected"
-    codeql.database.create(source_root="src")
-
-@pytest.mark.ql_test(expected=".paths-only.expected")
-def test_config_paths_only(codeql, actions):
-    codeql.database.create(source_root="src", codescanning_config="codeql-config.paths-only.yml")
-
-@pytest.mark.ql_test(expected=".paths-ignore-only.expected")
-def test_config_paths_ignore_only(codeql, actions):
-    codeql.database.create(source_root="src", codescanning_config="codeql-config.paths-ignore-only.yml")
-
-@pytest.mark.ql_test(expected=".paths-and-paths-ignore.expected")
-def test_config_paths_and_paths_ignore(codeql, actions):
-    codeql.database.create(source_root="src", codescanning_config="codeql-config.paths-and-paths-ignore.yml")

actions/ql/integration-tests/query-suite/actions-code-quality.qls.expected

@@ -1 +0,0 @@
-

actions/ql/integration-tests/query-suite/actions-code-scanning.qls.expected

@@ -1,17 +0,0 @@
-ql/actions/ql/src/Security/CWE-077/EnvPathInjectionCritical.ql
-ql/actions/ql/src/Security/CWE-077/EnvVarInjectionCritical.ql
-ql/actions/ql/src/Security/CWE-094/CodeInjectionCritical.ql
-ql/actions/ql/src/Security/CWE-1395/UseOfKnownVulnerableAction.ql
-ql/actions/ql/src/Security/CWE-275/MissingActionsPermissions.ql
-ql/actions/ql/src/Security/CWE-285/ImproperAccessControl.ql
-ql/actions/ql/src/Security/CWE-312/ExcessiveSecretsExposure.ql
-ql/actions/ql/src/Security/CWE-312/SecretsInArtifacts.ql
-ql/actions/ql/src/Security/CWE-312/UnmaskedSecretExposure.ql
-ql/actions/ql/src/Security/CWE-349/CachePoisoningViaCodeInjection.ql
-ql/actions/ql/src/Security/CWE-349/CachePoisoningViaDirectCache.ql
-ql/actions/ql/src/Security/CWE-349/CachePoisoningViaPoisonableStep.ql
-ql/actions/ql/src/Security/CWE-367/UntrustedCheckoutTOCTOUCritical.ql
-ql/actions/ql/src/Security/CWE-367/UntrustedCheckoutTOCTOUHigh.ql
-ql/actions/ql/src/Security/CWE-829/ArtifactPoisoningCritical.ql
-ql/actions/ql/src/Security/CWE-829/UntrustedCheckoutCritical.ql
-ql/actions/ql/src/Security/CWE-829/UntrustedCheckoutHigh.ql

actions/ql/integration-tests/query-suite/actions-security-and-quality.qls.expected

@@ -1,27 +0,0 @@
-ql/actions/ql/src/Debug/SyntaxError.ql
-ql/actions/ql/src/Security/CWE-077/EnvPathInjectionCritical.ql
-ql/actions/ql/src/Security/CWE-077/EnvPathInjectionMedium.ql
-ql/actions/ql/src/Security/CWE-077/EnvVarInjectionCritical.ql
-ql/actions/ql/src/Security/CWE-077/EnvVarInjectionMedium.ql
-ql/actions/ql/src/Security/CWE-094/CodeInjectionCritical.ql
-ql/actions/ql/src/Security/CWE-094/CodeInjectionMedium.ql
-ql/actions/ql/src/Security/CWE-1395/UseOfKnownVulnerableAction.ql
-ql/actions/ql/src/Security/CWE-275/MissingActionsPermissions.ql
-ql/actions/ql/src/Security/CWE-285/ImproperAccessControl.ql
-ql/actions/ql/src/Security/CWE-312/ExcessiveSecretsExposure.ql
-ql/actions/ql/src/Security/CWE-312/SecretsInArtifacts.ql
-ql/actions/ql/src/Security/CWE-312/UnmaskedSecretExposure.ql
-ql/actions/ql/src/Security/CWE-349/CachePoisoningViaCodeInjection.ql
-ql/actions/ql/src/Security/CWE-349/CachePoisoningViaDirectCache.ql
-ql/actions/ql/src/Security/CWE-349/CachePoisoningViaPoisonableStep.ql
-ql/actions/ql/src/Security/CWE-367/UntrustedCheckoutTOCTOUCritical.ql
-ql/actions/ql/src/Security/CWE-367/UntrustedCheckoutTOCTOUHigh.ql
-ql/actions/ql/src/Security/CWE-571/ExpressionIsAlwaysTrueCritical.ql
-ql/actions/ql/src/Security/CWE-571/ExpressionIsAlwaysTrueHigh.ql
-ql/actions/ql/src/Security/CWE-829/ArtifactPoisoningCritical.ql
-ql/actions/ql/src/Security/CWE-829/ArtifactPoisoningMedium.ql
-ql/actions/ql/src/Security/CWE-829/UnpinnedActionsTag.ql
-ql/actions/ql/src/Security/CWE-829/UntrustedCheckoutCritical.ql
-ql/actions/ql/src/Security/CWE-829/UntrustedCheckoutHigh.ql
-ql/actions/ql/src/Security/CWE-829/UntrustedCheckoutMedium.ql
-ql/actions/ql/src/Violations Of Best Practice/CodeQL/UnnecessaryUseOfAdvancedConfig.ql

actions/ql/integration-tests/query-suite/actions-security-extended.qls.expected

@@ -1,23 +0,0 @@
-ql/actions/ql/src/Security/CWE-077/EnvPathInjectionCritical.ql
-ql/actions/ql/src/Security/CWE-077/EnvPathInjectionMedium.ql
-ql/actions/ql/src/Security/CWE-077/EnvVarInjectionCritical.ql
-ql/actions/ql/src/Security/CWE-077/EnvVarInjectionMedium.ql
-ql/actions/ql/src/Security/CWE-094/CodeInjectionCritical.ql
-ql/actions/ql/src/Security/CWE-094/CodeInjectionMedium.ql
-ql/actions/ql/src/Security/CWE-1395/UseOfKnownVulnerableAction.ql
-ql/actions/ql/src/Security/CWE-275/MissingActionsPermissions.ql
-ql/actions/ql/src/Security/CWE-285/ImproperAccessControl.ql
-ql/actions/ql/src/Security/CWE-312/ExcessiveSecretsExposure.ql
-ql/actions/ql/src/Security/CWE-312/SecretsInArtifacts.ql
-ql/actions/ql/src/Security/CWE-312/UnmaskedSecretExposure.ql
-ql/actions/ql/src/Security/CWE-349/CachePoisoningViaCodeInjection.ql
-ql/actions/ql/src/Security/CWE-349/CachePoisoningViaDirectCache.ql
-ql/actions/ql/src/Security/CWE-349/CachePoisoningViaPoisonableStep.ql
-ql/actions/ql/src/Security/CWE-367/UntrustedCheckoutTOCTOUCritical.ql
-ql/actions/ql/src/Security/CWE-367/UntrustedCheckoutTOCTOUHigh.ql
-ql/actions/ql/src/Security/CWE-829/ArtifactPoisoningCritical.ql
-ql/actions/ql/src/Security/CWE-829/ArtifactPoisoningMedium.ql
-ql/actions/ql/src/Security/CWE-829/UnpinnedActionsTag.ql
-ql/actions/ql/src/Security/CWE-829/UntrustedCheckoutCritical.ql
-ql/actions/ql/src/Security/CWE-829/UntrustedCheckoutHigh.ql
-ql/actions/ql/src/Security/CWE-829/UntrustedCheckoutMedium.ql

actions/ql/integration-tests/query-suite/not_included_in_qls.expected

@@ -1,17 +0,0 @@
-ql/actions/ql/src/Debug/partial.ql
-ql/actions/ql/src/Models/CompositeActionsSinks.ql
-ql/actions/ql/src/Models/CompositeActionsSources.ql
-ql/actions/ql/src/Models/CompositeActionsSummaries.ql
-ql/actions/ql/src/Models/ReusableWorkflowsSinks.ql
-ql/actions/ql/src/Models/ReusableWorkflowsSources.ql
-ql/actions/ql/src/Models/ReusableWorkflowsSummaries.ql
-ql/actions/ql/src/experimental/Security/CWE-074/OutputClobberingHigh.ql
-ql/actions/ql/src/experimental/Security/CWE-078/CommandInjectionCritical.ql
-ql/actions/ql/src/experimental/Security/CWE-078/CommandInjectionMedium.ql
-ql/actions/ql/src/experimental/Security/CWE-088/ArgumentInjectionCritical.ql
-ql/actions/ql/src/experimental/Security/CWE-088/ArgumentInjectionMedium.ql
-ql/actions/ql/src/experimental/Security/CWE-200/SecretExfiltration.ql
-ql/actions/ql/src/experimental/Security/CWE-284/CodeExecutionOnSelfHostedRunner.ql
-ql/actions/ql/src/experimental/Security/CWE-829/ArtifactPoisoningPathTraversal.ql
-ql/actions/ql/src/experimental/Security/CWE-829/UnversionedImmutableAction.ql
-ql/actions/ql/src/experimental/Security/CWE-918/RequestForgery.ql

actions/ql/integration-tests/query-suite/test.py

@@ -1,14 +0,0 @@
-import runs_on
-import pytest
-from query_suites import *
-
-well_known_query_suites = ['actions-code-quality.qls', 'actions-security-and-quality.qls', 'actions-security-extended.qls', 'actions-code-scanning.qls']
-
-@runs_on.posix
-@pytest.mark.parametrize("query_suite", well_known_query_suites)
-def test(codeql, actions, check_query_suite, query_suite):
-    check_query_suite(query_suite)
-
-@runs_on.posix
-def test_not_included_queries(codeql, actions, check_queries_not_included):
-    check_queries_not_included('actions', well_known_query_suites)

actions/ql/lib/CHANGELOG.md

@@ -1,47 +0,0 @@
-## 0.4.8
-
-No user-facing changes.
-
-## 0.4.7
-
-### New Features
-
-* CodeQL and Copilot Autofix support for GitHub Actions is now Generally Available.
-
-## 0.4.6
-
-### Bug Fixes
-
-* The query `actions/code-injection/medium` now produces alerts for injection
-  vulnerabilities on `pull_request` events.
-
-## 0.4.5
-
-No user-facing changes.
-
-## 0.4.4
-
-No user-facing changes.
-
-## 0.4.3
-
-### New Features
-
-* The "Unpinned tag for a non-immutable Action in workflow" query (`actions/unpinned-tag`) now supports expanding the trusted action owner list using data extensions (`extensible: trustedActionsOwnerDataModel`). If you trust an Action publisher, you can include the owner name/organization in a model pack to add it to the allow list for this query. This addition will prevent security alerts when using unpinned tags for Actions published by that owner. For more information on creating a model pack, see [Creating a CodeQL Model Pack](https://docs.github.com/en/code-security/codeql-cli/using-the-advanced-functionality-of-the-codeql-cli/creating-and-working-with-codeql-packs#creating-a-codeql-model-pack).
-
-## 0.4.2
-
-### Bug Fixes
-
-* Fixed data for vulnerable versions of `actions/download-artifact` and `rlespinasse/github-slug-action` (following GHSA-cxww-7g56-2vh6 and GHSA-6q4m-7476-932w).
-* Improved `untrustedGhCommandDataModel` regex for `gh pr view` and Bash taint analysis in GitHub Actions.
-
-## 0.4.1
-
-No user-facing changes.
-
-## 0.4.0
-
-### New Features
-
-* Initial public preview release

actions/ql/lib/actions.qll

@@ -1 +1 @@
-import codeql.actions.Ast
+predicate placeholder(int x) { x = 0 }

actions/ql/lib/change-notes/released/0.4.0.md

@@ -1,5 +0,0 @@
-## 0.4.0
-
-### New Features
-
-* Initial public preview release

actions/ql/lib/change-notes/released/0.4.1.md

@@ -1,3 +0,0 @@
-## 0.4.1
-
-No user-facing changes.

actions/ql/lib/change-notes/released/0.4.2.md

@@ -1,6 +0,0 @@
-## 0.4.2
-
-### Bug Fixes
-
-* Fixed data for vulnerable versions of `actions/download-artifact` and `rlespinasse/github-slug-action` (following GHSA-cxww-7g56-2vh6 and GHSA-6q4m-7476-932w).
-* Improved `untrustedGhCommandDataModel` regex for `gh pr view` and Bash taint analysis in GitHub Actions.

actions/ql/lib/change-notes/released/0.4.3.md

@@ -1,5 +0,0 @@
-## 0.4.3
-
-### New Features
-
-* The "Unpinned tag for a non-immutable Action in workflow" query (`actions/unpinned-tag`) now supports expanding the trusted action owner list using data extensions (`extensible: trustedActionsOwnerDataModel`). If you trust an Action publisher, you can include the owner name/organization in a model pack to add it to the allow list for this query. This addition will prevent security alerts when using unpinned tags for Actions published by that owner. For more information on creating a model pack, see [Creating a CodeQL Model Pack](https://docs.github.com/en/code-security/codeql-cli/using-the-advanced-functionality-of-the-codeql-cli/creating-and-working-with-codeql-packs#creating-a-codeql-model-pack).

actions/ql/lib/change-notes/released/0.4.4.md

@@ -1,3 +0,0 @@
-## 0.4.4
-
-No user-facing changes.

actions/ql/lib/change-notes/released/0.4.5.md

@@ -1,3 +0,0 @@
-## 0.4.5
-
-No user-facing changes.

actions/ql/lib/change-notes/released/0.4.6.md

@@ -1,6 +0,0 @@
-## 0.4.6
-
-### Bug Fixes
-
-* The query `actions/code-injection/medium` now produces alerts for injection
-  vulnerabilities on `pull_request` events.

actions/ql/lib/change-notes/released/0.4.7.md

@@ -1,5 +0,0 @@
-## 0.4.7
-
-### New Features
-
-* CodeQL and Copilot Autofix support for GitHub Actions is now Generally Available.

actions/ql/lib/change-notes/released/0.4.8.md

@@ -1,3 +0,0 @@
-## 0.4.8
-
-No user-facing changes.

actions/ql/lib/codeql-pack.lock.yml

@@ -1,4 +0,0 @@
----
-lockVersion: 1.0.0
-dependencies: {}
-compiled: false

actions/ql/lib/codeql-pack.release.yml

@@ -1,2 +0,0 @@
----
-lastReleaseVersion: 0.4.8

actions/ql/lib/codeql/Locations.qll

@@ -1,98 +0,0 @@
-/** Provides classes for working with locations. */
-
-import files.FileSystem
-import codeql.actions.ast.internal.Ast
-
-bindingset[loc]
-pragma[inline_late]
-private string locationToString(Location loc) {
-  exists(string filepath, int startline, int startcolumn, int endline, int endcolumn |
-    loc.hasLocationInfo(filepath, startline, startcolumn, endline, endcolumn) and
-    result = filepath + "@" + startline + ":" + startcolumn + ":" + endline + ":" + endcolumn
-  )
-}
-
-newtype TLocation =
-  TBaseLocation(string filepath, int startline, int startcolumn, int endline, int endcolumn) {
-    exists(File file |
-      file.getAbsolutePath() = filepath and
-      locations_default(_, file, startline, startcolumn, endline, endcolumn)
-    )
-    or
-    exists(ExpressionImpl e |
-      e.hasLocationInfo(filepath, startline, startcolumn, endline, endcolumn)
-    )
-    or
-    filepath = "" and startline = 0 and startcolumn = 0 and endline = 0 and endcolumn = 0
-  }
-
-/**
- * A location as given by a file, a start line, a start column,
- * an end line, and an end column.
- *
- * For more information about locations see [Locations](https://codeql.github.com/docs/writing-codeql-queries/providing-locations-in-codeql-queries/).
- */
-class Location extends TLocation, TBaseLocation {
-  string filepath;
-  int startline;
-  int startcolumn;
-  int endline;
-  int endcolumn;
-
-  Location() { this = TBaseLocation(filepath, startline, startcolumn, endline, endcolumn) }
-
-  /** Gets the file for this location. */
-  File getFile() {
-    exists(File file |
-      file.getAbsolutePath() = filepath and
-      result = file
-    )
-  }
-
-  /** Gets the 1-based line number (inclusive) where this location starts. */
-  int getStartLine() { result = startline }
-
-  /** Gets the 1-based column number (inclusive) where this location starts. */
-  int getStartColumn() { result = startcolumn }
-
-  /** Gets the 1-based line number (inclusive) where this.getLocationDefault() location ends. */
-  int getEndLine() { result = endline }
-
-  /** Gets the 1-based column number (inclusive) where this.getLocationDefault() location ends. */
-  int getEndColumn() { result = endcolumn }
-
-  /** Gets the number of lines covered by this location. */
-  int getNumLines() { result = endline - startline + 1 }
-
-  /** Gets a textual representation of this element. */
-  pragma[inline]
-  string toString() { result = locationToString(this) }
-
-  /**
-   * Holds if this element is at the specified location.
-   * The location spans column `startcolumn` of line `startline` to
-   * column `endcolumn` of line `endline` in file `filepath`.
-   * For more information, see
-   * [Providing locations in CodeQL queries](https://codeql.github.com/docs/writing-codeql-queries/providing-locations-in-codeql-queries/).
-   */
-  predicate hasLocationInfo(string p, int sl, int sc, int el, int ec) {
-    p = filepath and
-    sl = startline and
-    sc = startcolumn and
-    el = endline and
-    ec = endcolumn
-  }
-
-  /** Holds if this location starts strictly before the specified location. */
-  pragma[inline]
-  predicate strictlyBefore(Location other) {
-    this.getStartLine() < other.getStartLine()
-    or
-    this.getStartLine() = other.getStartLine() and this.getStartColumn() < other.getStartColumn()
-  }
-}
-
-/** An entity representing an empty location. */
-class EmptyLocation extends Location {
-  EmptyLocation() { this.hasLocationInfo("", 0, 0, 0, 0) }
-}

actions/ql/lib/codeql/actions/Ast.qll

@@ -1,400 +0,0 @@
-private import codeql.actions.ast.internal.Ast
-private import codeql.Locations
-import codeql.actions.Helper
-
-class AstNode instanceof AstNodeImpl {
-  AstNode getAChildNode() { result = super.getAChildNode() }
-
-  AstNode getParentNode() { result = super.getParentNode() }
-
-  string getAPrimaryQlClass() { result = super.getAPrimaryQlClass() }
-
-  Location getLocation() { result = super.getLocation() }
-
-  string toString() { result = super.toString() }
-
-  Step getEnclosingStep() { result = super.getEnclosingStep() }
-
-  Job getEnclosingJob() { result = super.getEnclosingJob() }
-
-  Event getATriggerEvent() { result = super.getATriggerEvent() }
-
-  Workflow getEnclosingWorkflow() { result = super.getEnclosingWorkflow() }
-
-  CompositeAction getEnclosingCompositeAction() { result = super.getEnclosingCompositeAction() }
-
-  Expression getInScopeEnvVarExpr(string name) { result = super.getInScopeEnvVarExpr(name) }
-
-  ScalarValue getInScopeDefaultValue(string name, string prop) {
-    result = super.getInScopeDefaultValue(name, prop)
-  }
-}
-
-class ScalarValue extends AstNode instanceof ScalarValueImpl {
-  string getValue() { result = super.getValue() }
-}
-
-class Expression extends AstNode instanceof ExpressionImpl {
-  string expression;
-  string rawExpression;
-
-  Expression() {
-    expression = this.getExpression() and
-    rawExpression = this.getRawExpression()
-  }
-
-  string getExpression() { result = expression }
-
-  string getRawExpression() { result = rawExpression }
-
-  string getNormalizedExpression() { result = normalizeExpr(expression) }
-}
-
-/** A common class for `env` in workflow, job or step. */
-abstract class Env extends AstNode instanceof EnvImpl {
-  /** Gets an environment variable value given its name. */
-  ScalarValueImpl getEnvVarValue(string name) { result = super.getEnvVarValue(name) }
-
-  /** Gets an environment variable value. */
-  ScalarValueImpl getAnEnvVarValue() { result = super.getAnEnvVarValue() }
-
-  /** Gets an environment variable expressin given its name. */
-  ExpressionImpl getEnvVarExpr(string name) { result = super.getEnvVarExpr(name) }
-
-  /** Gets an environment variable expression. */
-  ExpressionImpl getAnEnvVarExpr() { result = super.getAnEnvVarExpr() }
-}
-
-/**
- * A custom composite action. This is a mapping at the top level of an Actions YAML action file.
- * See https://docs.github.com/en/actions/creating-actions/metadata-syntax-for-github-actions.
- */
-class CompositeAction extends AstNode instanceof CompositeActionImpl {
-  Runs getRuns() { result = super.getRuns() }
-
-  Outputs getOutputs() { result = super.getOutputs() }
-
-  Expression getAnOutputExpr() { result = super.getAnOutputExpr() }
-
-  Expression getOutputExpr(string outputName) { result = super.getOutputExpr(outputName) }
-
-  Input getAnInput() { result = super.getAnInput() }
-
-  Input getInput(string inputName) { result = super.getInput(inputName) }
-
-  LocalJob getACallerJob() { result = super.getACallerJob() }
-
-  UsesStep getACallerStep() { result = super.getACallerStep() }
-
-  predicate isPrivileged() { super.isPrivileged() }
-}
-
-/**
- * An Actions workflow. This is a mapping at the top level of an Actions YAML workflow file.
- * See https://docs.github.com/en/actions/reference/workflow-syntax-for-github-actions.
- */
-class Workflow extends AstNode instanceof WorkflowImpl {
-  Env getEnv() { result = super.getEnv() }
-
-  string getName() { result = super.getName() }
-
-  Job getAJob() { result = super.getAJob() }
-
-  Job getJob(string jobId) { result = super.getJob(jobId) }
-
-  Permissions getPermissions() { result = super.getPermissions() }
-
-  Strategy getStrategy() { result = super.getStrategy() }
-
-  On getOn() { result = super.getOn() }
-}
-
-class ReusableWorkflow extends Workflow instanceof ReusableWorkflowImpl {
-  Outputs getOutputs() { result = super.getOutputs() }
-
-  Expression getAnOutputExpr() { result = super.getAnOutputExpr() }
-
-  Expression getOutputExpr(string outputName) { result = super.getOutputExpr(outputName) }
-
-  Input getAnInput() { result = super.getAnInput() }
-
-  Input getInput(string inputName) { result = super.getInput(inputName) }
-
-  ExternalJob getACaller() { result = super.getACaller() }
-}
-
-class Input extends AstNode instanceof InputImpl { }
-
-class Default extends AstNode instanceof DefaultsImpl {
-  ScalarValue getValue(string name, string prop) { result = super.getValue(name, prop) }
-}
-
-class Outputs extends AstNode instanceof OutputsImpl {
-  Expression getAnOutputExpr() { result = super.getAnOutputExpr() }
-
-  Expression getOutputExpr(string outputName) { result = super.getOutputExpr(outputName) }
-
-  override string toString() { result = "Job outputs node" }
-}
-
-class Permissions extends AstNode instanceof PermissionsImpl {
-  bindingset[perm]
-  string getPermission(string perm) { result = super.getPermission(perm) }
-
-  string getAPermission() { result = super.getAPermission() }
-}
-
-class Strategy extends AstNode instanceof StrategyImpl {
-  Expression getMatrixVarExpr(string varName) { result = super.getMatrixVarExpr(varName) }
-
-  Expression getAMatrixVarExpr() { result = super.getAMatrixVarExpr() }
-}
-
-/**
- * https://docs.github.com/en/actions/using-workflows/workflow-syntax-for-github-actions#jobsjob_idneeds
- */
-class Needs extends AstNode instanceof NeedsImpl {
-  Job getANeededJob() { result = super.getANeededJob() }
-}
-
-class On extends AstNode instanceof OnImpl {
-  Event getAnEvent() { result = super.getAnEvent() }
-}
-
-class Event extends AstNode instanceof EventImpl {
-  string getName() { result = super.getName() }
-
-  string getAnActivityType() { result = super.getAnActivityType() }
-
-  string getAPropertyValue(string prop) { result = super.getAPropertyValue(prop) }
-
-  predicate hasProperty(string prop) { super.hasProperty(prop) }
-
-  predicate isExternallyTriggerable() { super.isExternallyTriggerable() }
-
-  predicate isPrivileged() { super.isPrivileged() }
-}
-
-/**
- * An Actions job within a workflow.
- * See https://docs.github.com/en/actions/reference/workflow-syntax-for-github-actions#jobs.
- */
-abstract class Job extends AstNode instanceof JobImpl {
-  string getId() { result = super.getId() }
-
-  Workflow getWorkflow() { result = super.getWorkflow() }
-
-  Job getANeededJob() { result = super.getANeededJob() }
-
-  Outputs getOutputs() { result = super.getOutputs() }
-
-  Expression getAnOutputExpr() { result = super.getAnOutputExpr() }
-
-  Expression getOutputExpr(string outputName) { result = super.getOutputExpr(outputName) }
-
-  Env getEnv() { result = super.getEnv() }
-
-  If getIf() { result = super.getIf() }
-
-  Environment getEnvironment() { result = super.getEnvironment() }
-
-  Permissions getPermissions() { result = super.getPermissions() }
-
-  Strategy getStrategy() { result = super.getStrategy() }
-
-  string getARunsOnLabel() { result = super.getARunsOnLabel() }
-
-  predicate isPrivileged() { super.isPrivileged() }
-
-  predicate isPrivilegedExternallyTriggerable(Event event) {
-    super.isPrivilegedExternallyTriggerable(event)
-  }
-}
-
-abstract class StepsContainer extends AstNode instanceof StepsContainerImpl {
-  Step getAStep() { result = super.getAStep() }
-
-  Step getStep(int i) { result = super.getStep(i) }
-}
-
-/**
- * An `runs` mapping in a custom composite action YAML.
- * See https://docs.github.com/en/actions/creating-actions/metadata-syntax-for-github-actions#runs
- */
-class Runs extends StepsContainer instanceof RunsImpl {
-  CompositeAction getAction() { result = super.getAction() }
-}
-
-/**
- * An Actions job within a workflow which is composed of steps.
- * See https://docs.github.com/en/actions/reference/workflow-syntax-for-github-actions#jobs.
- */
-class LocalJob extends Job, StepsContainer instanceof LocalJobImpl { }
-
-/**
- * A step within an Actions job.
- * See https://docs.github.com/en/actions/reference/workflow-syntax-for-github-actions#jobsjob_idsteps.
- */
-class Step extends AstNode instanceof StepImpl {
-  string getId() { result = super.getId() }
-
-  Env getEnv() { result = super.getEnv() }
-
-  If getIf() { result = super.getIf() }
-
-  StepsContainer getContainer() { result = super.getContainer() }
-
-  Step getNextStep() { result = super.getNextStep() }
-
-  Step getAFollowingStep() { result = super.getAFollowingStep() }
-}
-
-/**
- * An If node representing a conditional statement.
- */
-class If extends AstNode instanceof IfImpl {
-  string getCondition() { result = super.getCondition() }
-
-  Expression getConditionExpr() { result = super.getConditionExpr() }
-
-  string getConditionStyle() { result = super.getConditionStyle() }
-}
-
-/**
- * An Environemnt node representing a deployment environment.
- */
-class Environment extends AstNode instanceof EnvironmentImpl {
-  string getName() { result = super.getName() }
-
-  Expression getNameExpr() { result = super.getNameExpr() }
-}
-
-abstract class Uses extends AstNode instanceof UsesImpl {
-  string getCallee() { result = super.getCallee() }
-
-  ScalarValue getCalleeNode() { result = super.getCalleeNode() }
-
-  string getVersion() { result = super.getVersion() }
-
-  int getMajorVersion() { result = super.getMajorVersion() }
-
-  string getArgument(string argName) { result = super.getArgument(argName) }
-
-  Expression getArgumentExpr(string argName) { result = super.getArgumentExpr(argName) }
-}
-
-class UsesStep extends Step, Uses instanceof UsesStepImpl { }
-
-class ExternalJob extends Job, Uses instanceof ExternalJobImpl { }
-
-/**
- * A `run` field within an Actions job step, which runs command-line programs using an operating system shell.
- * See https://docs.github.com/en/free-pro-team@latest/actions/reference/workflow-syntax-for-github-actions#jobsjob_idstepsrun.
- */
-class Run extends Step instanceof RunImpl {
-  ShellScript getScript() { result = super.getScript() }
-
-  Expression getAnScriptExpr() { result = super.getAnScriptExpr() }
-
-  string getWorkingDirectory() { result = super.getWorkingDirectory() }
-
-  string getShell() { result = super.getShell() }
-}
-
-class ShellScript extends ScalarValueImpl instanceof ShellScriptImpl {
-  string getRawScript() { result = super.getRawScript() }
-
-  string getStmt(int i) { result = super.getStmt(i) }
-
-  string getAStmt() { result = super.getAStmt() }
-
-  string getCommand(int i) { result = super.getCommand(i) }
-
-  string getACommand() { result = super.getACommand() }
-
-  string getFileReadCommand(int i) { result = super.getFileReadCommand(i) }
-
-  string getAFileReadCommand() { result = super.getAFileReadCommand() }
-
-  predicate getAssignment(int i, string name, string data) { super.getAssignment(i, name, data) }
-
-  predicate getAnAssignment(string name, string data) { super.getAnAssignment(name, data) }
-
-  predicate getAWriteToGitHubEnv(string name, string data) {
-    super.getAWriteToGitHubEnv(name, data)
-  }
-
-  predicate getAWriteToGitHubOutput(string name, string data) {
-    super.getAWriteToGitHubOutput(name, data)
-  }
-
-  predicate getAWriteToGitHubPath(string data) { super.getAWriteToGitHubPath(data) }
-
-  predicate getAnEnvReachingGitHubOutputWrite(string var, string output_field) {
-    super.getAnEnvReachingGitHubOutputWrite(var, output_field)
-  }
-
-  predicate getACmdReachingGitHubOutputWrite(string cmd, string output_field) {
-    super.getACmdReachingGitHubOutputWrite(cmd, output_field)
-  }
-
-  predicate getAnEnvReachingGitHubEnvWrite(string var, string output_field) {
-    super.getAnEnvReachingGitHubEnvWrite(var, output_field)
-  }
-
-  predicate getACmdReachingGitHubEnvWrite(string cmd, string output_field) {
-    super.getACmdReachingGitHubEnvWrite(cmd, output_field)
-  }
-
-  predicate getAnEnvReachingGitHubPathWrite(string var) {
-    super.getAnEnvReachingGitHubPathWrite(var)
-  }
-
-  predicate getACmdReachingGitHubPathWrite(string cmd) { super.getACmdReachingGitHubPathWrite(cmd) }
-
-  predicate getAnEnvReachingArgumentInjectionSink(string var, string command, string argument) {
-    super.getAnEnvReachingArgumentInjectionSink(var, command, argument)
-  }
-
-  predicate getACmdReachingArgumentInjectionSink(string cmd, string command, string argument) {
-    super.getACmdReachingArgumentInjectionSink(cmd, command, argument)
-  }
-
-  predicate fileToGitHubEnv(string path) { super.fileToGitHubEnv(path) }
-
-  predicate fileToGitHubOutput(string path) { super.fileToGitHubOutput(path) }
-
-  predicate fileToGitHubPath(string path) { super.fileToGitHubPath(path) }
-}
-
-abstract class SimpleReferenceExpression extends AstNode instanceof SimpleReferenceExpressionImpl {
-  string getFieldName() { result = super.getFieldName() }
-
-  AstNode getTarget() { result = super.getTarget() }
-}
-
-class JsonReferenceExpression extends AstNode instanceof JsonReferenceExpressionImpl {
-  string getAccessPath() { result = super.getAccessPath() }
-
-  string getInnerExpression() { result = super.getInnerExpression() }
-}
-
-class GitHubExpression extends SimpleReferenceExpression instanceof GitHubExpressionImpl { }
-
-class SecretsExpression extends SimpleReferenceExpression instanceof SecretsExpressionImpl { }
-
-class StepsExpression extends SimpleReferenceExpression instanceof StepsExpressionImpl {
-  string getStepId() { result = super.getStepId() }
-}
-
-class NeedsExpression extends SimpleReferenceExpression instanceof NeedsExpressionImpl {
-  string getNeededJobId() { result = super.getNeededJobId() }
-}
-
-class JobsExpression extends SimpleReferenceExpression instanceof JobsExpressionImpl { }
-
-class InputsExpression extends SimpleReferenceExpression instanceof InputsExpressionImpl { }
-
-class EnvExpression extends SimpleReferenceExpression instanceof EnvExpressionImpl { }
-
-class MatrixExpression extends SimpleReferenceExpression instanceof MatrixExpressionImpl { }

actions/ql/lib/codeql/actions/Bash.qll

@@ -1,737 +0,0 @@
-private import codeql.actions.Ast
-
-class BashShellScript extends ShellScript {
-  BashShellScript() {
-    exists(Run run |
-      this = run.getScript() and
-      run.getShell().matches(["bash%", "sh"])
-    )
-  }
-
-  private string lineProducer(int i) {
-    result = this.getRawScript().regexpReplaceAll("\\\\\\s*\n", "").splitAt("\n", i)
-  }
-
-  private predicate cmdSubstitutionReplacement(string cmdSubs, string id, int k) {
-    exists(string line | line = this.lineProducer(k) |
-      exists(int i, int j |
-        cmdSubs =
-          // $() cmd substitution
-          line.regexpFind("\\$\\((?:[^()]+|\\((?:[^()]+|\\([^()]*\\))*\\))*\\)", i, j)
-              .regexpReplaceAll("^\\$\\(", "")
-              .regexpReplaceAll("\\)$", "") and
-        id = "cmdsubs:" + k + ":" + i + ":" + j
-      )
-      or
-      exists(int i, int j |
-        // `...` cmd substitution
-        cmdSubs =
-          line.regexpFind("\\`[^\\`]+\\`", i, j)
-              .regexpReplaceAll("^\\`", "")
-              .regexpReplaceAll("\\`$", "") and
-        id = "cmd:" + k + ":" + i + ":" + j
-      )
-    )
-  }
-
-  private predicate rankedCmdSubstitutionReplacements(int i, string old, string new) {
-    old = rank[i](string old2 | this.cmdSubstitutionReplacement(old2, _, _) | old2) and
-    this.cmdSubstitutionReplacement(old, new, _)
-  }
-
-  private predicate doReplaceCmdSubstitutions(int line, int round, string old, string new) {
-    round = 0 and
-    old = this.lineProducer(line) and
-    new = old
-    or
-    round > 0 and
-    exists(string middle, string target, string replacement |
-      this.doReplaceCmdSubstitutions(line, round - 1, old, middle) and
-      this.rankedCmdSubstitutionReplacements(round, target, replacement) and
-      new = middle.replaceAll(target, replacement)
-    )
-  }
-
-  private string cmdSubstitutedLineProducer(int i) {
-    // script lines where any command substitution has been replaced with a unique placeholder
-    result =
-      max(int round, string new |
-        this.doReplaceCmdSubstitutions(i, round, _, new)
-      |
-        new order by round
-      )
-    or
-    this.cmdSubstitutionReplacement(result, _, i)
-  }
-
-  private predicate quotedStringReplacement(string quotedStr, string id) {
-    exists(string line, int k | line = this.cmdSubstitutedLineProducer(k) |
-      exists(int i, int j |
-        // double quoted string
-        quotedStr = line.regexpFind("\"((?:[^\"\\\\]|\\\\.)*)\"", i, j) and
-        id =
-          "qstr:" + k + ":" + i + ":" + j + ":" + quotedStr.length() + ":" +
-            quotedStr.regexpReplaceAll("[^a-zA-Z0-9]", "")
-      )
-      or
-      exists(int i, int j |
-        // single quoted string
-        quotedStr = line.regexpFind("'((?:\\\\.|[^'\\\\])*)'", i, j) and
-        id =
-          "qstr:" + k + ":" + i + ":" + j + ":" + quotedStr.length() + ":" +
-            quotedStr.regexpReplaceAll("[^a-zA-Z0-9]", "")
-      )
-    ) and
-    // Only do this for strings that might otherwise disrupt subsequent parsing
-    quotedStr.regexpMatch("[\"'].*[$\n\r'\"" + Bash::separator() + "].*[\"']")
-  }
-
-  private predicate rankedQuotedStringReplacements(int i, string old, string new) {
-    old = rank[i](string old2 | this.quotedStringReplacement(old2, _) | old2) and
-    this.quotedStringReplacement(old, new)
-  }
-
-  private predicate doReplaceQuotedStrings(int line, int round, string old, string new) {
-    round = 0 and
-    old = this.cmdSubstitutedLineProducer(line) and
-    new = old
-    or
-    round > 0 and
-    exists(string middle, string target, string replacement |
-      this.doReplaceQuotedStrings(line, round - 1, old, middle) and
-      this.rankedQuotedStringReplacements(round, target, replacement) and
-      new = middle.replaceAll(target, replacement)
-    )
-  }
-
-  private string quotedStringLineProducer(int i) {
-    result =
-      max(int round, string new | this.doReplaceQuotedStrings(i, round, _, new) | new order by round)
-  }
-
-  private string stmtProducer(int i) {
-    result = this.quotedStringLineProducer(i).splitAt(Bash::splitSeparator()).trim() and
-    // when splitting the line with a separator that is not present, the result is the original line which may contain other separators
-    // we only one the split parts that do not contain any of the separators
-    not result.indexOf(Bash::splitSeparator()) > -1
-  }
-
-  private predicate doStmtRestoreQuotedStrings(int line, int round, string old, string new) {
-    round = 0 and
-    old = this.stmtProducer(line) and
-    new = old
-    or
-    round > 0 and
-    exists(string middle, string target, string replacement |
-      this.doStmtRestoreQuotedStrings(line, round - 1, old, middle) and
-      this.rankedQuotedStringReplacements(round, target, replacement) and
-      new = middle.replaceAll(replacement, target)
-    )
-  }
-
-  private string restoredStmtQuotedStringLineProducer(int i) {
-    result =
-      max(int round, string new |
-        this.doStmtRestoreQuotedStrings(i, round, _, new)
-      |
-        new order by round
-      ) and
-    not result.indexOf("qstr:") > -1
-  }
-
-  private predicate doStmtRestoreCmdSubstitutions(int line, int round, string old, string new) {
-    round = 0 and
-    old = this.restoredStmtQuotedStringLineProducer(line) and
-    new = old
-    or
-    round > 0 and
-    exists(string middle, string target, string replacement |
-      this.doStmtRestoreCmdSubstitutions(line, round - 1, old, middle) and
-      this.rankedCmdSubstitutionReplacements(round, target, replacement) and
-      new = middle.replaceAll(replacement, target)
-    )
-  }
-
-  override string getStmt(int i) {
-    result =
-      max(int round, string new |
-        this.doStmtRestoreCmdSubstitutions(i, round, _, new)
-      |
-        new order by round
-      ) and
-    not result.indexOf("cmdsubs:") > -1
-  }
-
-  override string getAStmt() { result = this.getStmt(_) }
-
-  private string cmdProducer(int i) {
-    result = this.quotedStringLineProducer(i).splitAt(Bash::separator()).trim() and
-    // when splitting the line with a separator that is not present, the result is the original line which may contain other separators
-    // we only one the split parts that do not contain any of the separators
-    not result.indexOf(Bash::separator()) > -1
-  }
-
-  private predicate doCmdRestoreQuotedStrings(int line, int round, string old, string new) {
-    round = 0 and
-    old = this.cmdProducer(line) and
-    new = old
-    or
-    round > 0 and
-    exists(string middle, string target, string replacement |
-      this.doCmdRestoreQuotedStrings(line, round - 1, old, middle) and
-      this.rankedQuotedStringReplacements(round, target, replacement) and
-      new = middle.replaceAll(replacement, target)
-    )
-  }
-
-  private string restoredCmdQuotedStringLineProducer(int i) {
-    result =
-      max(int round, string new |
-        this.doCmdRestoreQuotedStrings(i, round, _, new)
-      |
-        new order by round
-      ) and
-    not result.indexOf("qstr:") > -1
-  }
-
-  private predicate doCmdRestoreCmdSubstitutions(int line, int round, string old, string new) {
-    round = 0 and
-    old = this.restoredCmdQuotedStringLineProducer(line) and
-    new = old
-    or
-    round > 0 and
-    exists(string middle, string target, string replacement |
-      this.doCmdRestoreCmdSubstitutions(line, round - 1, old, middle) and
-      this.rankedCmdSubstitutionReplacements(round, target, replacement) and
-      new = middle.replaceAll(replacement, target)
-    )
-  }
-
-  string getCmd(int i) {
-    result =
-      max(int round, string new |
-        this.doCmdRestoreCmdSubstitutions(i, round, _, new)
-      |
-        new order by round
-      ) and
-    not result.indexOf("cmdsubs:") > -1
-  }
-
-  string getACmd() { result = this.getCmd(_) }
-
-  override string getCommand(int i) {
-    // remove redirection
-    result =
-      this.getCmd(i)
-          .regexpReplaceAll("(>|>>|2>|2>>|<|<<<)\\s*[\\{\\}\\$\"'_\\-0-9a-zA-Z]+$", "")
-          .trim() and
-    // exclude variable declarations
-    not result.regexpMatch("^[a-zA-Z0-9\\-_]+=") and
-    // exclude comments
-    not result.trim().indexOf("#") = 0 and
-    // exclude the following keywords
-    not result =
-      [
-        "", "for", "in", "do", "done", "if", "then", "else", "elif", "fi", "while", "until", "case",
-        "esac", "{", "}"
-      ]
-  }
-
-  override string getACommand() { result = this.getCommand(_) }
-
-  override string getFileReadCommand(int i) {
-    result = this.getStmt(i) and
-    result.matches(Bash::fileReadCommand() + "%")
-  }
-
-  override string getAFileReadCommand() { result = this.getFileReadCommand(_) }
-
-  override predicate getAssignment(int i, string name, string data) {
-    exists(string stmt |
-      stmt = this.getStmt(i) and
-      name = stmt.regexpCapture("^([a-zA-Z0-9\\-_]+)=.*", 1) and
-      data = stmt.regexpCapture("^[a-zA-Z0-9\\-_]+=(.*)", 1)
-    )
-  }
-
-  override predicate getAnAssignment(string name, string data) { this.getAssignment(_, name, data) }
-
-  override predicate getAWriteToGitHubEnv(string name, string data) {
-    exists(string raw |
-      Bash::extractFileWrite(this, "GITHUB_ENV", raw) and
-      Bash::extractVariableAndValue(raw, name, data)
-    )
-  }
-
-  override predicate getAWriteToGitHubOutput(string name, string data) {
-    exists(string raw |
-      Bash::extractFileWrite(this, "GITHUB_OUTPUT", raw) and
-      Bash::extractVariableAndValue(raw, name, data)
-    )
-  }
-
-  override predicate getAWriteToGitHubPath(string data) {
-    Bash::extractFileWrite(this, "GITHUB_PATH", data)
-  }
-
-  override predicate getAnEnvReachingGitHubOutputWrite(string var, string output_field) {
-    Bash::envReachingGitHubFileWrite(this, var, "GITHUB_OUTPUT", output_field)
-  }
-
-  override predicate getACmdReachingGitHubOutputWrite(string cmd, string output_field) {
-    Bash::cmdReachingGitHubFileWrite(this, cmd, "GITHUB_OUTPUT", output_field)
-  }
-
-  override predicate getAnEnvReachingGitHubEnvWrite(string var, string output_field) {
-    Bash::envReachingGitHubFileWrite(this, var, "GITHUB_ENV", output_field)
-  }
-
-  override predicate getACmdReachingGitHubEnvWrite(string cmd, string output_field) {
-    Bash::cmdReachingGitHubFileWrite(this, cmd, "GITHUB_ENV", output_field)
-  }
-
-  override predicate getAnEnvReachingGitHubPathWrite(string var) {
-    Bash::envReachingGitHubFileWrite(this, var, "GITHUB_PATH", _)
-  }
-
-  override predicate getACmdReachingGitHubPathWrite(string cmd) {
-    Bash::cmdReachingGitHubFileWrite(this, cmd, "GITHUB_PATH", _)
-  }
-
-  override predicate getAnEnvReachingArgumentInjectionSink(
-    string var, string command, string argument
-  ) {
-    Bash::envReachingArgumentInjectionSink(this, var, command, argument)
-  }
-
-  override predicate getACmdReachingArgumentInjectionSink(
-    string cmd, string command, string argument
-  ) {
-    Bash::cmdReachingArgumentInjectionSink(this, cmd, command, argument)
-  }
-
-  override predicate fileToGitHubEnv(string path) {
-    Bash::fileToFileWrite(this, "GITHUB_ENV", path)
-  }
-
-  override predicate fileToGitHubOutput(string path) {
-    Bash::fileToFileWrite(this, "GITHUB_OUTPUT", path)
-  }
-
-  override predicate fileToGitHubPath(string path) {
-    Bash::fileToFileWrite(this, "GITHUB_PATH", path)
-  }
-}
-
-module Bash {
-  string stmtSeparator() { result = ";" }
-
-  string commandSeparator() { result = ["&&", "||"] }
-
-  string splitSeparator() {
-    result = stmtSeparator() or
-    result = commandSeparator()
-  }
-
-  string redirectionSeparator() { result = [">", ">>", "2>", "2>>", ">&", "2>&", "<", "<<<"] }
-
-  string pipeSeparator() { result = "|" }
-
-  string separator() {
-    result = stmtSeparator() or
-    result = commandSeparator() or
-    result = pipeSeparator()
-  }
-
-  string fileReadCommand() { result = ["<", "cat", "jq", "yq", "tail", "head"] }
-
-  /** Checks if expr is a bash command substitution */
-  bindingset[expr]
-  predicate isCmdSubstitution(string expr, string cmd) {
-    exists(string regexp |
-      // $(cmd)
-      regexp = "\\$\\(([^)]+)\\)" and
-      cmd = expr.regexpCapture(regexp, 1)
-      or
-      // `cmd`
-      regexp = "`([^`]+)`" and
-      cmd = expr.regexpCapture(regexp, 1)
-    )
-  }
-
-  /** Checks if expr is a bash command substitution */
-  bindingset[expr]
-  predicate containsCmdSubstitution(string expr, string cmd) {
-    exists(string regexp |
-      // $(cmd)
-      regexp = ".*\\$\\(([^)]+)\\).*" and
-      cmd = expr.regexpCapture(regexp, 1).trim()
-      or
-      // `cmd`
-      regexp = ".*`([^`]+)`.*" and
-      cmd = expr.regexpCapture(regexp, 1).trim()
-    )
-  }
-
-  /** Checks if expr is a bash parameter expansion */
-  bindingset[expr]
-  predicate isParameterExpansion(string expr, string parameter, string operator, string params) {
-    exists(string regexp |
-      // $VAR
-      regexp = "\\$([a-zA-Z_][a-zA-Z0-9_]+)\\b" and
-      parameter = expr.regexpCapture(regexp, 1) and
-      operator = "" and
-      params = ""
-      or
-      // ${VAR}
-      regexp = "\\$\\{([a-zA-Z_][a-zA-Z0-9_]*)\\}" and
-      parameter = expr.regexpCapture(regexp, 1) and
-      operator = "" and
-      params = ""
-      or
-      // ${!VAR}
-      regexp = "\\$\\{([!#])([a-zA-Z_][a-zA-Z0-9_]*)\\}" and
-      parameter = expr.regexpCapture(regexp, 2) and
-      operator = expr.regexpCapture(regexp, 1) and
-      params = ""
-      or
-      // ${VAR<OP><PARAMS>}, ...
-      regexp = "\\$\\{([a-zA-Z_][a-zA-Z0-9_]*)([#%/:^,\\-+]{1,2})?(.*?)\\}" and
-      parameter = expr.regexpCapture(regexp, 1) and
-      operator = expr.regexpCapture(regexp, 2) and
-      params = expr.regexpCapture(regexp, 3)
-    )
-  }
-
-  bindingset[expr]
-  predicate containsParameterExpansion(string expr, string parameter, string operator, string params) {
-    exists(string regexp |
-      // $VAR
-      regexp = ".*\\$([a-zA-Z_][a-zA-Z0-9_]+)\\b.*" and
-      parameter = expr.regexpCapture(regexp, 1) and
-      operator = "" and
-      params = ""
-      or
-      // ${VAR}
-      regexp = ".*\\$\\{([a-zA-Z_][a-zA-Z0-9_]*)\\}.*" and
-      parameter = expr.regexpCapture(regexp, 1) and
-      operator = "" and
-      params = ""
-      or
-      // ${!VAR}
-      regexp = ".*\\$\\{([!#])([a-zA-Z_][a-zA-Z0-9_]*)\\}.*" and
-      parameter = expr.regexpCapture(regexp, 2) and
-      operator = expr.regexpCapture(regexp, 1) and
-      params = ""
-      or
-      // ${VAR<OP><PARAMS>}, ...
-      regexp = ".*\\$\\{([a-zA-Z_][a-zA-Z0-9_]*)([#%/:^,\\-+]{1,2})?(.*?)\\}.*" and
-      parameter = expr.regexpCapture(regexp, 1) and
-      operator = expr.regexpCapture(regexp, 2) and
-      params = expr.regexpCapture(regexp, 3)
-    )
-  }
-
-  bindingset[raw_content]
-  predicate extractVariableAndValue(string raw_content, string key, string value) {
-    exists(string regexp, string content | content = trimQuotes(raw_content) |
-      regexp = "(?msi).*^([a-zA-Z_][a-zA-Z0-9_]*)\\s*<<\\s*['\"]?(\\S+)['\"]?\\s*\n(.*?)\n\\2\\s*$" and
-      key = trimQuotes(content.regexpCapture(regexp, 1)) and
-      value = trimQuotes(content.regexpCapture(regexp, 3))
-      or
-      exists(string line |
-        line = content.splitAt("\n") and
-        regexp = "(?i)^([a-zA-Z_][a-zA-Z0-9_\\-]*)\\s*=\\s*(.*)$" and
-        key = trimQuotes(line.regexpCapture(regexp, 1)) and
-        value = trimQuotes(line.regexpCapture(regexp, 2))
-      )
-    )
-  }
-
-  bindingset[script]
-  predicate singleLineFileWrite(
-    string script, string cmd, string file, string content, string filters
-  ) {
-    exists(string regexp |
-      regexp = "(?i)(echo|printf)\\s*(.*?)\\s*(>>|>|\\s*\\|\\s*tee\\s*(-a|--append)?)\\s*(\\S+)" and
-      cmd = script.regexpCapture(regexp, 1) and
-      file = trimQuotes(script.regexpCapture(regexp, 5)) and
-      filters = "" and
-      content = script.regexpCapture(regexp, 2)
-    )
-  }
-
-  bindingset[script]
-  predicate singleLineWorkflowCmd(string script, string cmd, string key, string value) {
-    exists(string regexp |
-      regexp = "(?i)(echo|printf)\\s*(['|\"])?::(set-[a-z]+)\\s*name\\s*=\\s*(.*?)::(.*)" and
-      cmd = script.regexpCapture(regexp, 3) and
-      key = script.regexpCapture(regexp, 4) and
-      value = trimQuotes(script.regexpCapture(regexp, 5))
-      or
-      regexp = "(?i)(echo|printf)\\s*(['|\"])?::(add-[a-z]+)\\s*::(.*)" and
-      cmd = script.regexpCapture(regexp, 3) and
-      key = "" and
-      value = trimQuotes(script.regexpCapture(regexp, 4))
-    )
-  }
-
-  bindingset[script]
-  predicate heredocFileWrite(string script, string cmd, string file, string content, string filters) {
-    exists(string regexp |
-      regexp =
-        "(?msi).*^(cat)\\s*(>>|>|\\s*\\|\\s*tee\\s*(-a|--append)?)\\s*(\\S+)\\s*<<\\s*['\"]?(\\S+)['\"]?\\s*\n(.*?)\n\\4\\s*$.*" and
-      cmd = script.regexpCapture(regexp, 1) and
-      file = trimQuotes(script.regexpCapture(regexp, 4)) and
-      content = script.regexpCapture(regexp, 6) and
-      filters = ""
-      or
-      regexp =
-        "(?msi).*^(cat)\\s*(<<|<)\\s*[-]?['\"]?(\\S+)['\"]?\\s*([^>]*)(>>|>|\\s*\\|\\s*tee\\s*(-a|--append)?)\\s*(\\S+)\\s*\n(.*?)\n\\3\\s*$.*" and
-      cmd = script.regexpCapture(regexp, 1) and
-      file = trimQuotes(script.regexpCapture(regexp, 7)) and
-      filters = script.regexpCapture(regexp, 4) and
-      content = script.regexpCapture(regexp, 8)
-    )
-  }
-
-  bindingset[script]
-  predicate linesFileWrite(string script, string cmd, string file, string content, string filters) {
-    exists(string regexp, string var_name |
-      regexp =
-        "(?msi).*((echo|printf)\\s+['|\"]?(.*?<<(\\S+))['|\"]?\\s*>>\\s*(\\S+)\\s*[\r\n]+)" +
-          "(((.*?)\\s*>>\\s*\\S+\\s*[\r\n]+)+)" +
-          "((echo|printf)\\s+['|\"]?(EOF)['|\"]?\\s*>>\\s*\\S+\\s*[\r\n]*).*" and
-      var_name = trimQuotes(script.regexpCapture(regexp, 3)).regexpReplaceAll("<<\\s*(\\S+)", "") and
-      content =
-        var_name + "=$(" +
-          trimQuotes(script.regexpCapture(regexp, 6))
-              .regexpReplaceAll(">>.*GITHUB_(ENV|OUTPUT)(})?", "")
-              .trim() + ")" and
-      cmd = "echo" and
-      file = trimQuotes(script.regexpCapture(regexp, 5)) and
-      filters = ""
-    )
-  }
-
-  bindingset[script]
-  predicate blockFileWrite(string script, string cmd, string file, string content, string filters) {
-    exists(string regexp, string first_line, string var_name |
-      regexp =
-        "(?msi).*^\\s*\\{\\s*[\r\n]" +
-          //
-          "(.*?)" +
-          //
-          "(\\s*\\}\\s*(>>|>|\\s*\\|\\s*tee\\s*(-a|--append)?)\\s*(\\S+))\\s*$.*" and
-      first_line = script.regexpCapture(regexp, 1).splitAt("\n", 0).trim() and
-      var_name = first_line.regexpCapture("echo\\s+('|\\\")?(.*)<<.*", 2) and
-      content = var_name + "=$(" + script.regexpCapture(regexp, 1).splitAt("\n").trim() + ")" and
-      not content.indexOf("EOF") > 0 and
-      file = trimQuotes(script.regexpCapture(regexp, 5)) and
-      cmd = "echo" and
-      filters = ""
-    )
-  }
-
-  bindingset[script]
-  predicate multiLineFileWrite(
-    string script, string cmd, string file, string content, string filters
-  ) {
-    heredocFileWrite(script, cmd, file, content, filters)
-    or
-    linesFileWrite(script, cmd, file, content, filters)
-    or
-    blockFileWrite(script, cmd, file, content, filters)
-  }
-
-  bindingset[file_var]
-  predicate extractFileWrite(BashShellScript script, string file_var, string content) {
-    // single line assignment
-    exists(string file_expr, string raw_content |
-      isParameterExpansion(file_expr, file_var, _, _) and
-      singleLineFileWrite(script.getAStmt(), _, file_expr, raw_content, _) and
-      content = trimQuotes(raw_content)
-    )
-    or
-    // workflow command assignment
-    exists(string key, string value, string cmd |
-      (
-        file_var = "GITHUB_ENV" and
-        cmd = "set-env" and
-        content = key + "=" + value
-        or
-        file_var = "GITHUB_OUTPUT" and
-        cmd = "set-output" and
-        content = key + "=" + value
-        or
-        file_var = "GITHUB_PATH" and
-        cmd = "add-path" and
-        content = value
-      ) and
-      singleLineWorkflowCmd(script.getAStmt(), cmd, key, value)
-    )
-    or
-    // multiline assignment
-    exists(string file_expr, string raw_content |
-      multiLineFileWrite(script.getRawScript(), _, file_expr, raw_content, _) and
-      isParameterExpansion(file_expr, file_var, _, _) and
-      content = trimQuotes(raw_content)
-    )
-  }
-
-  /** Writes the content of the file specified by `path` into a file pointed to by `file_var` */
-  predicate fileToFileWrite(BashShellScript script, string file_var, string path) {
-    exists(string regexp, string stmt, string file_expr |
-      regexp =
-        "(?i)(cat)\\s*" + "((?:(?!<<|<<-)[^>\n])+)\\s*" +
-          "(>>|>|\\s*\\|\\s*tee\\s*(-a|--append)?)\\s*" + "(\\S+)" and
-      stmt = script.getAStmt() and
-      file_expr = trimQuotes(stmt.regexpCapture(regexp, 5)) and
-      path = stmt.regexpCapture(regexp, 2) and
-      containsParameterExpansion(file_expr, file_var, _, _)
-    )
-  }
-
-  /**
-   * Holds if the Run scripts contains an access to an environment variable called `var`
-   * which value may get appended to the GITHUB_XXX special file
-   */
-  predicate envReachingGitHubFileWrite(
-    BashShellScript script, string var, string file_var, string field
-  ) {
-    exists(string file_write_value |
-      (
-        file_var = "GITHUB_ENV" and
-        script.getAWriteToGitHubEnv(field, file_write_value)
-        or
-        file_var = "GITHUB_OUTPUT" and
-        script.getAWriteToGitHubOutput(field, file_write_value)
-        or
-        file_var = "GITHUB_PATH" and
-        field = "PATH" and
-        script.getAWriteToGitHubPath(file_write_value)
-      ) and
-      envReachingRunExpr(script, var, file_write_value)
-    )
-  }
-
-  /**
-   * Holds if and environment variable is used, directly or indirectly, in a Run's step expression.
-   * Where the expression is a string captured from the Run's script.
-   */
-  bindingset[expr]
-  predicate envReachingRunExpr(BashShellScript script, string var, string expr) {
-    exists(string var2, string value2 |
-      // VAR2=${VAR:-default} (var2=value2)
-      // echo "FIELD=${VAR2:-default}" >> $GITHUB_ENV (field, file_write_value)
-      script.getAnAssignment(var2, value2) and
-      containsParameterExpansion(value2, var, _, _) and
-      containsParameterExpansion(expr, var2, _, _)
-    )
-    or
-    // var reaches the file write directly
-    // echo "FIELD=${VAR:-default}" >> $GITHUB_ENV (field, file_write_value)
-    containsParameterExpansion(expr, var, _, _)
-  }
-
-  /**
-   * Holds if the Run scripts contains a command substitution (`cmd`)
-   * which output may get appended to the GITHUB_XXX special file
-   */
-  predicate cmdReachingGitHubFileWrite(
-    BashShellScript script, string cmd, string file_var, string field
-  ) {
-    exists(string file_write_value |
-      (
-        file_var = "GITHUB_ENV" and
-        script.getAWriteToGitHubEnv(field, file_write_value)
-        or
-        file_var = "GITHUB_OUTPUT" and
-        script.getAWriteToGitHubOutput(field, file_write_value)
-        or
-        file_var = "GITHUB_PATH" and
-        field = "PATH" and
-        script.getAWriteToGitHubPath(file_write_value)
-      ) and
-      cmdReachingRunExpr(script, cmd, file_write_value)
-    )
-  }
-
-  predicate envReachingArgumentInjectionSink(
-    BashShellScript script, string source, string command, string argument
-  ) {
-    exists(string cmd, string regex, int command_group, int argument_group |
-      cmd = script.getACommand() and
-      argumentInjectionSinksDataModel(regex, command_group, argument_group) and
-      argument = cmd.regexpCapture(regex, argument_group).trim() and
-      command = cmd.regexpCapture(regex, command_group).trim() and
-      envReachingRunExpr(script, source, argument)
-    )
-  }
-
-  predicate cmdReachingArgumentInjectionSink(
-    BashShellScript script, string source, string command, string argument
-  ) {
-    exists(string cmd, string regex, int command_group, int argument_group |
-      cmd = script.getACommand() and
-      argumentInjectionSinksDataModel(regex, command_group, argument_group) and
-      argument = cmd.regexpCapture(regex, argument_group).trim() and
-      command = cmd.regexpCapture(regex, command_group).trim() and
-      cmdReachingRunExpr(script, source, argument)
-    )
-  }
-
-  /**
-   * Holds if a command output is used, directly or indirectly, in a Run's step expression.
-   * Where the expression is a string captured from the Run's script.
-   */
-  bindingset[expr]
-  predicate cmdReachingRunExpr(BashShellScript script, string cmd, string expr) {
-    // cmd output is assigned to a second variable (var2) and var2 reaches the file write
-    exists(string var2, string value2 |
-      // VAR2=$(cmd)
-      // echo "FIELD=${VAR2:-default}" >> $GITHUB_ENV (field, file_write_value)
-      script.getAnAssignment(var2, value2) and
-      containsCmdSubstitution(value2, cmd) and
-      containsParameterExpansion(expr, var2, _, _) and
-      not varMatchesRegexTest(script, var2, alphaNumericRegex())
-    )
-    or
-    exists(string var2, string value2, string var3, string value3 |
-      // VAR2=$(cmd)
-      // VAR3=$VAR2
-      // echo "FIELD=${VAR3:-default}" >> $GITHUB_ENV (field, file_write_value)
-      containsCmdSubstitution(value2, cmd) and
-      script.getAnAssignment(var2, value2) and
-      containsParameterExpansion(value3, var2, _, _) and
-      script.getAnAssignment(var3, value3) and
-      containsParameterExpansion(expr, var3, _, _) and
-      not varMatchesRegexTest(script, var2, alphaNumericRegex()) and
-      not varMatchesRegexTest(script, var3, alphaNumericRegex())
-    )
-    or
-    // var reaches the file write directly
-    // echo "FIELD=$(cmd)" >> $GITHUB_ENV (field, file_write_value)
-    containsCmdSubstitution(expr, cmd)
-  }
-
-  /**
-   * Holds if there test command that checks a variable against a regex
-   * eg: `[[ $VAR =~ ^[a-zA-Z0-9_]+$ ]]`
-   */
-  bindingset[var, regex]
-  predicate varMatchesRegexTest(BashShellScript script, string var, string regex) {
-    exists(string lhs, string rhs |
-      lhs = script.getACommand().regexpCapture(".*\\[\\[\\s*(.*?)\\s*=~\\s*(.*?)\\s*\\]\\].*", 1) and
-      containsParameterExpansion(lhs, var, _, _) and
-      rhs = script.getACommand().regexpCapture(".*\\[\\[\\s*(.*?)\\s*=~\\s*(.*?)\\s*\\]\\].*", 2) and
-      trimQuotes(rhs).regexpMatch(regex)
-    )
-  }
-
-  /**
-   * Holds if the given regex is used to match an alphanumeric string
-   * eg: `^[0-9a-zA-Z]{40}$`, `^[0-9]+$` or `^[a-zA-Z0-9_]+$`
-   */
-  string alphaNumericRegex() { result = "^\\^\\[([09azAZ_-]+)\\](\\+|\\{\\d+\\})\\$$" }
-}

actions/ql/lib/codeql/actions/Cfg.qll

@@ -1,6 +0,0 @@
-/** Provides classes representing the control flow graph. */
-
-private import codeql.actions.controlflow.internal.Cfg as CfgInternal
-import CfgInternal::Completion
-import CfgInternal::CfgScope
-import CfgInternal::CfgImpl

actions/ql/lib/codeql/actions/Consistency.ql

@@ -1 +0,0 @@
-import DataFlow::DataFlow::Consistency

actions/ql/lib/codeql/actions/DataFlow.qll

@@ -1,22 +0,0 @@
-/**
- * Provides classes for performing local (intra-procedural) and
- * global (inter-procedural) data flow analyses.
- */
-
-import codeql.Locations
-
-module DataFlow {
-  private import codeql.dataflow.DataFlow
-  private import codeql.actions.dataflow.internal.DataFlowImplSpecific
-  import DataFlowMake<Location, ActionsDataFlow>
-  import codeql.actions.dataflow.internal.DataFlowPublic
-  // debug
-  private import codeql.actions.dataflow.internal.TaintTrackingImplSpecific
-  import codeql.dataflow.internal.DataFlowImplConsistency as DFIC
-
-  module ActionsConsistency implements DFIC::InputSig<Location, ActionsDataFlow> { }
-
-  module Consistency {
-    import DFIC::MakeConsistency<Location, ActionsDataFlow, ActionsTaintTracking, ActionsConsistency>
-  }
-}

actions/ql/lib/codeql/actions/Helper.qll

@@ -1,88 +0,0 @@
-private import codeql.actions.Ast
-private import codeql.Locations
-private import codeql.actions.security.ControlChecks
-import codeql.actions.config.Config
-import codeql.actions.Bash
-import codeql.actions.PowerShell
-
-bindingset[expr]
-string normalizeExpr(string expr) {
-  result =
-    expr.regexpReplaceAll("\\['([a-zA-Z0-9_\\*\\-]+)'\\]", ".$1")
-        .regexpReplaceAll("\\[\"([a-zA-Z0-9_\\*\\-]+)\"\\]", ".$1")
-        .regexpReplaceAll("\\s*\\.\\s*", ".")
-}
-
-bindingset[regex]
-string wrapRegexp(string regex) { result = "\\b" + regex + "\\b" }
-
-bindingset[regex]
-string wrapJsonRegexp(string regex) {
-  result = ["fromJSON\\(\\s*" + regex + "\\s*\\)", "toJSON\\(\\s*" + regex + "\\s*\\)"]
-}
-
-bindingset[str]
-string trimQuotes(string str) {
-  result = str.trim().regexpReplaceAll("^(\"|')", "").regexpReplaceAll("(\"|')$", "")
-}
-
-predicate inPrivilegedContext(AstNode node, Event event) {
-  node.getEnclosingJob().isPrivilegedExternallyTriggerable(event)
-}
-
-predicate inNonPrivilegedContext(AstNode node) {
-  not node.getEnclosingJob().isPrivilegedExternallyTriggerable(_)
-}
-
-string defaultBranchNames() {
-  repositoryDataModel(_, result)
-  or
-  not exists(string default_branch_name | repositoryDataModel(_, default_branch_name)) and
-  result = ["main", "master"]
-}
-
-string getRepoRoot() {
-  exists(Workflow w |
-    w.getLocation().getFile().getRelativePath().indexOf("/.github/workflows") > 0 and
-    result =
-      w.getLocation()
-          .getFile()
-          .getRelativePath()
-          .prefix(w.getLocation().getFile().getRelativePath().indexOf("/.github/workflows") + 1) and
-    // exclude workflow_enum reusable workflows directory root
-    not result.indexOf(".github/workflows/external/") > -1 and
-    not result.indexOf(".github/actions/external/") > -1
-    or
-    not w.getLocation().getFile().getRelativePath().indexOf("/.github/workflows") > 0 and
-    not w.getLocation().getFile().getRelativePath().indexOf(".github/workflows/external/") > -1 and
-    not w.getLocation().getFile().getRelativePath().indexOf(".github/actions/external/") > -1 and
-    result = ""
-  )
-}
-
-bindingset[path]
-string normalizePath(string path) {
-  exists(string trimmed_path | trimmed_path = trimQuotes(path) |
-    // ./foo -> GITHUB_WORKSPACE/foo
-    if path.indexOf("./") = 0
-    then result = path.replaceAll("./", "GITHUB_WORKSPACE/")
-    else
-      // GITHUB_WORKSPACE/foo -> GITHUB_WORKSPACE/foo
-      if path.indexOf("GITHUB_WORKSPACE/") = 0
-      then result = path
-      else
-        // foo -> GITHUB_WORKSPACE/foo
-        if path.regexpMatch("^[^/~].*")
-        then result = "GITHUB_WORKSPACE/" + path.regexpReplaceAll("/$", "")
-        else
-          // ~/foo -> ~/foo
-          // /foo -> /foo
-          result = path
-  )
-}
-
-/**
- * Holds if the path cache_path is a subpath of the path untrusted_path.
- */
-bindingset[subpath, path]
-predicate isSubpath(string subpath, string path) { subpath.substring(0, path.length()) = path }

actions/ql/lib/codeql/actions/PowerShell.qll

@@ -1,62 +0,0 @@
-private import codeql.actions.Ast
-
-class PowerShellScript extends ShellScript {
-  PowerShellScript() {
-    exists(Run run |
-      this = run.getScript() and
-      run.getShell().matches("pwsh%")
-    )
-  }
-
-  override string getStmt(int i) { none() }
-
-  override string getAStmt() { none() }
-
-  override string getCommand(int i) { none() }
-
-  override string getACommand() { none() }
-
-  override string getFileReadCommand(int i) { none() }
-
-  override string getAFileReadCommand() { none() }
-
-  override predicate getAssignment(int i, string name, string data) { none() }
-
-  override predicate getAnAssignment(string name, string data) { none() }
-
-  override predicate getAWriteToGitHubEnv(string name, string data) { none() }
-
-  override predicate getAWriteToGitHubOutput(string name, string data) { none() }
-
-  override predicate getAWriteToGitHubPath(string data) { none() }
-
-  override predicate getAnEnvReachingGitHubOutputWrite(string var, string output_field) { none() }
-
-  override predicate getACmdReachingGitHubOutputWrite(string cmd, string output_field) { none() }
-
-  override predicate getAnEnvReachingGitHubEnvWrite(string var, string output_field) { none() }
-
-  override predicate getACmdReachingGitHubEnvWrite(string cmd, string output_field) { none() }
-
-  override predicate getAnEnvReachingGitHubPathWrite(string var) { none() }
-
-  override predicate getACmdReachingGitHubPathWrite(string cmd) { none() }
-
-  override predicate getAnEnvReachingArgumentInjectionSink(
-    string var, string command, string argument
-  ) {
-    none()
-  }
-
-  override predicate getACmdReachingArgumentInjectionSink(
-    string cmd, string command, string argument
-  ) {
-    none()
-  }
-
-  override predicate fileToGitHubEnv(string path) { none() }
-
-  override predicate fileToGitHubOutput(string path) { none() }
-
-  override predicate fileToGitHubPath(string path) { none() }
-}

actions/ql/lib/codeql/actions/TaintTracking.qll

@@ -1,13 +0,0 @@
-/**
- * Provides classes for performing local (intra-procedural) and
- * global (inter-procedural) taint-tracking analyses.
- */
-
-import codeql.Locations
-
-module TaintTracking {
-  private import codeql.actions.dataflow.internal.DataFlowImplSpecific
-  private import codeql.actions.dataflow.internal.TaintTrackingImplSpecific
-  private import codeql.dataflow.TaintTracking
-  import TaintFlowMake<Location, ActionsDataFlow, ActionsTaintTracking>
-}

actions/ql/lib/codeql/actions/Violations Of Best Practices/DefaultableCodeQLInitiatlizeActionQuery.qll

@@ -1,32 +0,0 @@
-private import actions
-
-/**
- * Holds if workflow step uses the github/codeql-action/init action with no customizations.
- * e.g.
- *     - name: Initialize
- *       uses: github/codeql-action/init@v2
- *       with:
- *         languages: ruby, javascript
- */
-class DefaultableCodeQLInitiatlizeActionQuery extends UsesStep {
-  DefaultableCodeQLInitiatlizeActionQuery() {
-    this.getCallee() = "github/codeql-action/init" and
-    not customizedWorkflowStep(this)
-  }
-}
-
-/**
- * Holds if the with: part of the workflow step contains any arguments for with: other than "languages".
- * e.g.
- *  - name: Initialize CodeQL
- *       uses: github/codeql-action/init@v3
- *       with:
- *         languages: ${{ matrix.language }}
- *         config-file: ./.github/codeql/${{ matrix.language }}/codeql-config.yml
- */
-predicate customizedWorkflowStep(UsesStep codeQLInitStep) {
-  exists(string arg |
-    exists(codeQLInitStep.getArgument(arg)) and
-    arg != "languages"
-  )
-}