ci: add CodeQL advanced setup to scan pull requests before merge (#5250)

* ci: add CodeQL advanced setup to scan pull requests before merge

* ci(codeql): preserve scheduled scans

Add a weekly advanced-setup scan and update the security CI guide so default setup remains disabled.

---------

Co-authored-by: RaresKeY <158580472+RaresKeY@users.noreply.github.com>

.github/workflows/codeql.yml

@@ -0,0 +1,41 @@
+name: CodeQL
+
+# Advanced setup so CodeQL also runs on pull requests (including from forks),
+# surfacing findings before merge instead of only after a change lands on dev.
+on:
+  push:
+    branches: [dev, main]
+  pull_request:
+    branches: [dev]
+  schedule:
+    - cron: "17 3 * * 1"
+
+permissions:
+  contents: read
+
+jobs:
+  analyze:
+    name: Analyze (${{ matrix.language }})
+    runs-on: ubuntu-latest
+    permissions:
+      security-events: write
+      actions: read
+      contents: read
+    strategy:
+      fail-fast: false
+      matrix:
+        language: [actions, javascript-typescript, python]
+    steps:
+      - name: Checkout
+        uses: actions/checkout@9c091bb21b7c1c1d1991bb908d89e4e9dddfe3e0  # v7.0.0
+        with:
+          persist-credentials: false
+      - name: Initialize CodeQL
+        uses: github/codeql-action/init@8aad20d150bbac5944a9f9d289da16a4b0d87c1e  # v4.36.2
+        with:
+          languages: ${{ matrix.language }}
+          build-mode: none
+      - name: Perform CodeQL Analysis
+        uses: github/codeql-action/analyze@8aad20d150bbac5944a9f9d289da16a4b0d87c1e  # v4.36.2
+        with:
+          category: "/language:${{ matrix.language }}"

docs/security-ci.md

@@ -7,10 +7,9 @@ benefit.
 
 ## What runs, and why
 
-Most checks live in files under `.github/workflows/`. CodeQL is configured
-through GitHub's code scanning default setup, so it appears as a dynamic GitHub
-workflow instead of a checked-in workflow file. They run automatically; you do
-not start them.
+Most checks live in files under `.github/workflows/`. CodeQL uses the
+checked-in advanced configuration in `.github/workflows/codeql.yml`. They run
+automatically; you do not start them.
 
 | Check | What it protects against | Blocks a merge? |
 |---|---|---|
@@ -90,14 +89,9 @@ let the workflows run on one pull request first, then add them here.
 2. Turn on **Dependency graph** (usually on by default for public repos) -- this
    powers Dependency review and Dependabot.
 3. Turn on **Dependabot alerts** and **Dependabot security updates**.
-4. Under **Code scanning**, use **Set up -> Default** for CodeQL. GitHub then
-   runs CodeQL as a dynamic workflow without the fork-token limitations that
-   affect checked-in advanced workflows.
-
-   Do not also add a checked-in CodeQL workflow while default setup is enabled:
-   GitHub rejects advanced CodeQL uploads when default setup is active. If the
-   project later needs an advanced CodeQL workflow, disable default setup first
-   and keep only one CodeQL publishing path active.
+4. Under **Code scanning**, keep **Default setup** disabled. CodeQL is
+   configured by `.github/workflows/codeql.yml`; enabling default setup at the
+   same time causes GitHub to reject uploads from the checked-in workflow.
 
 ## Keeping it current
 

docs/setup.md

@@ -196,6 +196,34 @@ docker compose exec odysseus nvidia-smi -L
 
 For first-time local model testing on 8 GB laptop GPUs, start with GGUF/Q4 models on llama.cpp before trying GPTQ/AWQ models on vLLM or SGLang. This keeps the first run simpler while confirming GPU passthrough works.
 
+**WSL2 + snap Docker.** If the NVIDIA check fails with this error, Docker may be
+installed via snap:
+
+```text
+failed to fulfil mount request: open /usr/lib/wsl/lib/libdxcore.so: no such file or directory
+```
+
+Check with `snap list docker` or:
+
+```bash
+docker info --format '{{.DockerRootDir}}'
+```
+
+A Docker root under `/var/snap/docker/` means snap confinement can prevent
+Docker from seeing WSL2's `/usr/lib/wsl/lib` GPU libraries even when the files
+exist on the host. Reinstalling or reconfiguring `nvidia-container-toolkit` will
+not fix that. Remove snap Docker, install the official apt-based Docker Engine
+([Docker docs](https://docs.docker.com/engine/install/ubuntu/)), then configure
+the NVIDIA runtime again:
+
+```bash
+sudo snap remove docker
+sudo nvidia-ctk runtime configure --runtime=docker
+sudo systemctl restart docker
+```
+
+Then re-run `scripts/check-docker-gpu.sh`.
+
 Safety notes:
 - The app never installs host GPU runtime automatically.
 - The app never edits `.env` automatically.

scripts/check-docker-gpu.sh

@@ -214,6 +214,22 @@ _check_nvidia_smi() {
     echo
 }
 
+# WSL2 snap Docker cannot see /usr/lib/wsl/lib/libdxcore.so from its confined
+# namespace, so NVIDIA passthrough fails until the user switches to non-snap
+# Docker. DockerRootDir identifies snap installs more reliably than snap(8).
+_is_wsl() {
+    grep -qi microsoft /proc/version 2>/dev/null && return 0
+    [ -d /usr/lib/wsl ] && return 0
+    return 1
+}
+
+_is_docker_snap() {
+    case "$(docker info --format '{{.DockerRootDir}}' 2>/dev/null)" in
+        */snap/docker/*|*/snap.docker/*) return 0 ;;
+    esac
+    return 1
+}
+
 # Returns 1 if Docker is unavailable (callers should stop further GPU checks).
 _check_docker() {
     _info "Checking Docker..."
@@ -258,6 +274,26 @@ _check_gpu_passthrough() {
         echo
         _fail "GPU passthrough failed. Check these steps in order:"
         echo
+        if _is_wsl && _is_docker_snap; then
+            _warn "Detected: Docker installed via snap, running on WSL2."
+            _warn "This is a known incompatibility, not a toolkit/config problem:"
+            _warn "  snap confines Docker's mount namespace, so it cannot see the"
+            _warn "  WSL2-injected GPU library at /usr/lib/wsl/lib/libdxcore.so even"
+            _warn "  though the file exists on the host. Installing/reconfiguring"
+            _warn "  nvidia-container-toolkit will NOT fix this — the numbered"
+            _warn "  steps below will not help until Docker itself is replaced."
+            echo
+            _info "Fix: remove snap Docker and install the official apt-based Docker"
+            _info "Engine instead (unsandboxed, can see /usr/lib/wsl/lib):"
+            echo
+            echo "  sudo snap remove docker"
+            echo "  # then follow: https://docs.docker.com/engine/install/ubuntu/"
+            echo "  sudo nvidia-ctk runtime configure --runtime=docker"
+            echo "  sudo systemctl restart docker"
+            echo
+            _info "Re-run this script afterward to confirm passthrough works."
+            echo
+        fi
         echo "  1. Install NVIDIA Container Toolkit (if not already installed):"
         echo "     Arch:    sudo pacman -S nvidia-container-toolkit"
         echo "     Debian:  sudo apt install nvidia-container-toolkit"