docs(plc): add PLC Runtime Landscape reference + support watch-list

Documents the soft-PLC runtime ecosystem as a support watch-list: we support the
CODESYS family today (incl. the many rebranded-CODESYS OEMs — Schneider, WAGO,
ABB, Bosch, Eaton, KEBA), and everything else (ProConOS/ISaGRAF/straton, Siemens
TIA, Rockwell, Beckhoff TwinCAT, B&R, Mitsubishi, Omron, PLCnext) is watch-list —
we add a project-format parser when a customer needs it. The dynamic OT probe is
vendor-agnostic. Also lists the open-source test-bench substrates (OpenPLC,
Beremiz+MatIEC, 4diac). New Reference sidebar entry.

Co-Authored-By: Claude Opus 4.8 <noreply@anthropic.com>

Cargo.lock

@@ -679,6 +679,7 @@ dependencies = [
  "rand 0.9.2",
  "regex",
  "reqwest",
+ "roxmltree",
  "secrecy",
  "serde",
  "serde_json",
@@ -2103,7 +2104,7 @@ source = "registry+https://github.com/rust-lang/crates.io-index"
 checksum = "39cab71617ae0d63f51a36d69f866391735b51691dbda63cf6f96d042b63efeb"
 dependencies = [
  "libc",
- "windows-sys 0.52.0",
+ "windows-sys 0.61.2",
 ]
 
 [[package]]
@@ -3698,7 +3699,7 @@ version = "0.50.3"
 source = "registry+https://github.com/rust-lang/crates.io-index"
 checksum = "7957b9740744892f114936ab4a57b3f487491bbeafaf8083688b16841a4240e5"
 dependencies = [
- "windows-sys 0.60.2",
+ "windows-sys 0.61.2",
 ]
 
 [[package]]
@@ -4628,6 +4629,12 @@ dependencies = [
  "syn",
 ]
 
+[[package]]
+name = "roxmltree"
+version = "0.20.0"
+source = "registry+https://github.com/rust-lang/crates.io-index"
+checksum = "6c20b6793b5c2fa6553b250154b78d6d0db37e72700ae35fad9387a46f487c97"
+
 [[package]]
 name = "rust-stemmers"
 version = "1.2.0"
@@ -4679,7 +4686,7 @@ dependencies = [
  "errno",
  "libc",
  "linux-raw-sys 0.4.15",
- "windows-sys 0.52.0",
+ "windows-sys 0.59.0",
 ]
 
 [[package]]
@@ -4692,7 +4699,7 @@ dependencies = [
  "errno",
  "libc",
  "linux-raw-sys 0.12.1",
- "windows-sys 0.52.0",
+ "windows-sys 0.61.2",
 ]
 
 [[package]]
@@ -5215,7 +5222,7 @@ version = "0.8.9"
 source = "registry+https://github.com/rust-lang/crates.io-index"
 checksum = "c1c97747dbf44bb1ca44a561ece23508e99cb592e862f22222dcf42f51d1e451"
 dependencies = [
- "heck 0.4.1",
+ "heck 0.5.0",
  "proc-macro2",
  "quote",
  "syn",
@@ -5570,10 +5577,10 @@ source = "registry+https://github.com/rust-lang/crates.io-index"
 checksum = "82a72c767771b47409d2345987fda8628641887d5466101319899796367354a0"
 dependencies = [
  "fastrand",
- "getrandom 0.3.4",
+ "getrandom 0.4.1",
  "once_cell",
  "rustix 1.1.4",
- "windows-sys 0.52.0",
+ "windows-sys 0.61.2",
 ]
 
 [[package]]
@@ -6746,7 +6753,7 @@ version = "0.1.11"
 source = "registry+https://github.com/rust-lang/crates.io-index"
 checksum = "c2a7b1c03c876122aa43f3020e6c3c3ee5c05081c9a00739faf7503aeba10d22"
 dependencies = [
- "windows-sys 0.48.0",
+ "windows-sys 0.61.2",
 ]
 
 [[package]]

Cargo.toml

@@ -23,7 +23,7 @@ tracing = "0.1"
 tracing-subscriber = { version = "0.3", features = ["env-filter"] }
 chrono = { version = "0.4", features = ["serde"] }
 mongodb = { version = "3", features = ["rustls-tls", "compat-3-0-0"] }
-reqwest = { version = "0.12", features = ["json", "rustls-tls"], default-features = false }
+reqwest = { version = "0.12", features = ["json", "rustls-tls", "multipart"], default-features = false }
 thiserror = "2"
 sha2 = "0.10"
 hex = "0.4"

Dockerfile.agent

@@ -13,6 +13,12 @@ RUN --mount=type=secret,id=tramiton_token \
     fi && \
     CARGO_NET_GIT_FETCH_WITH_CLI=true cargo build --release -p compliance-agent
 
+# A throwaway stage that packs a real nix store (store paths + the validity DB)
+# into a compressed bootstrap tarball. Only the tarball is copied into the final
+# image, so we don't carry a raw /nix copy layer.
+FROM nixos/nix:latest AS nixseed
+RUN tar -C / -czf /nix-bootstrap.tar.gz nix
+
 FROM debian:bookworm-slim
 RUN apt-get update && apt-get install -y ca-certificates libssl3 git curl python3 python3-pip npm golang-go php-cli && rm -rf /var/lib/apt/lists/*
 
@@ -40,20 +46,30 @@ RUN pip3 install --break-system-packages semgrep
 # Install ruff for Python linting
 RUN pip3 install --break-system-packages ruff
 
-# Install nix-portable (rootless nix) so the firmware-SBOM pipeline can drive a
-# tramiton reproducible build (NixBackend). Best-effort: if the download fails,
-# the agent falls back to analysis-only firmware SBOMs (never breaks a scan).
-# The nix store lives under NP_LOCATION — mount a PERSISTENT volume there in the
-# deployment, else every firmware scan re-fetches nixpkgs + cross toolchains.
-ARG NIX_PORTABLE_VERSION=v012
-RUN curl -fsSL -o /usr/local/bin/nix-portable \
-      "https://github.com/DavHau/nix-portable/releases/download/${NIX_PORTABLE_VERSION}/nix-portable-x86_64" \
-    && chmod +x /usr/local/bin/nix-portable \
-    || { rm -f /usr/local/bin/nix-portable; echo "WARN: nix-portable install skipped; firmware SBOM uses analysis-only fallback"; }
-ENV NP_LOCATION=/data/compliance-scanner
-RUN mkdir -p /data/compliance-scanner
+# Real nix for the tramiton reproducible-build firmware SBOM.
+#
+# nix-portable's proot fallback can't run here: user namespaces are blocked by
+# the container's default seccomp/apparmor profile, and orca exposes no way to
+# relax it. So ship a *real* nix and disable its build sandbox
+# (`sandbox = false`) — a plain gcc/make firmware build needs no user namespace,
+# so it runs fine under the locked-down profile with no proot involved.
+#
+# The store is shipped as a bootstrap tarball and seeded onto /nix at first
+# start (see docker/agent-entrypoint.sh), so a persistent /nix volume survives
+# redeploys. A missing/broken nix just falls back to the analysis-only SBOM.
+COPY --from=nixseed /nix-bootstrap.tar.gz /opt/nix-bootstrap.tar.gz
+ENV PATH="/nix/var/nix/profiles/default/bin:${PATH}"
+RUN mkdir -p /etc/nix && printf '%s\n' \
+      'experimental-features = nix-command flakes' \
+      'sandbox = false' \
+      'build-users-group =' \
+      'substituters = https://cache.nixos.org' \
+      'trusted-public-keys = cache.nixos.org-1:6NCHdD59X431o0gWypbMrAURkbJ16ZPMQFGspcDShjY=' \
+      > /etc/nix/nix.conf
 
 COPY --from=builder /app/target/release/compliance-agent /usr/local/bin/compliance-agent
+COPY docker/agent-entrypoint.sh /usr/local/bin/agent-entrypoint.sh
+RUN chmod +x /usr/local/bin/agent-entrypoint.sh
 
 # Copy documentation for the help chat assistant
 COPY --from=builder /app/README.md /app/README.md
@@ -65,5 +81,6 @@ RUN mkdir -p /data/compliance-scanner/ssh
 
 EXPOSE 3001 3002
 
-ENTRYPOINT ["compliance-agent"]
+# Seeds /nix (fresh volume) from the bootstrap tarball, then runs the agent.
+ENTRYPOINT ["/usr/local/bin/agent-entrypoint.sh"]
 

compliance-agent/Cargo.toml

@@ -34,7 +34,7 @@ hex = { workspace = true }
 uuid = { workspace = true }
 secrecy = { workspace = true }
 regex = { workspace = true }
-axum = "0.8"
+axum = { version = "0.8", features = ["multipart"] }
 tower-http = { version = "0.6", features = ["cors", "trace", "set-header"] }
 git2 = "0.20"
 octocrab = "0.44"
@@ -42,6 +42,8 @@ tokio-cron-scheduler = "0.13"
 dotenvy = "0.15"
 hmac = "0.12"
 walkdir = "2"
+# Read-only XML tree parsing for PLCopen project files (POU extraction).
+roxmltree = "0.20"
 base64 = "0.22"
 urlencoding = "2"
 futures-util = "0.3"
@@ -63,5 +65,5 @@ tokio = { workspace = true }
 mongodb = { workspace = true }
 uuid = { workspace = true }
 secrecy = { workspace = true }
-axum = "0.8"
+axum = { version = "0.8", features = ["multipart"] }
 tower-http = { version = "0.6", features = ["cors"] }

compliance-agent/src/agent.rs

@@ -63,21 +63,12 @@ impl ComplianceAgent {
         let db = self.db_pool.for_tenant_id(tenant_id).await?;
         let orchestrator =
             PipelineOrchestrator::new(self.config.clone(), db, self.llm.clone(), self.http.clone());
-        if self.config.unified_pipeline {
-            orchestrator.run_target(repo_id, trigger).await
-        } else {
-            orchestrator.run(repo_id, trigger).await
-        }
+        orchestrator.run_target(repo_id, trigger).await
     }
 
-    /// Run a scan for an onboarded target through the unified pipeline,
-    /// unconditionally.
-    ///
-    /// Unlike [`Self::run_scan`], this does *not* consult the
-    /// `unified_pipeline` transition flag: the caller (the `/targets/{id}/scan`
-    /// endpoint) operates on `onboarded_targets` by construction, so it must
-    /// always dispatch to `run_target` regardless of how the legacy paths
-    /// (scheduler, webhooks, `/repositories/{id}/scan`) are configured.
+    /// Alias for [`Self::run_scan`] — every scan runs the unified onboarded-target
+    /// pipeline. Kept as a distinct name for the `/targets/{id}/scan` endpoint's
+    /// intent.
     pub async fn run_target_scan(
         &self,
         tenant_id: &str,
@@ -100,16 +91,19 @@ impl ComplianceAgent {
         head_sha: &str,
     ) -> Result<(), crate::error::AgentError> {
         let db = self.db_pool.for_tenant_id(tenant_id).await?;
-        let repo = db
-            .repositories()
-            .find_one(mongodb::bson::doc! {
-                "_id": mongodb::bson::oid::ObjectId::parse_str(repo_id)
-                    .map_err(|e| crate::error::AgentError::Other(e.to_string()))?
-            })
+        let oid = mongodb::bson::oid::ObjectId::parse_str(repo_id)
+            .map_err(|e| crate::error::AgentError::Other(e.to_string()))?;
+        let target = db
+            .onboarded_targets()
+            .find_one(mongodb::bson::doc! { "_id": oid })
             .await?
             .ok_or_else(|| {
-                crate::error::AgentError::Other(format!("Repository {repo_id} not found"))
+                crate::error::AgentError::Other(format!("Target {repo_id} not found"))
             })?;
+        let code = target.code_artifact().ok_or_else(|| {
+            crate::error::AgentError::Other(format!("Target {repo_id} has no code artifact"))
+        })?;
+        let repo = crate::pipeline::repo_view::RepoView::from_target(&target, code);
 
         let orchestrator =
             PipelineOrchestrator::new(self.config.clone(), db, self.llm.clone(), self.http.clone());

compliance-agent/src/api/handlers/chat.rs

@@ -146,7 +146,7 @@ pub async fn build_embeddings(
     let agent_clone = (*agent).clone();
     tokio::spawn(async move {
         let repo = match db
-            .repositories()
+            .onboarded_targets()
             .find_one(doc! { "_id": mongodb::bson::oid::ObjectId::parse_str(&repo_id).ok() })
             .await
         {
@@ -194,14 +194,22 @@ pub async fn build_embeddings(
                 }
             };
 
+        let code = match repo.code_artifact() {
+            Some(c) => c,
+            None => {
+                tracing::error!("Target {repo_id} has no code artifact for embedding build");
+                return;
+            }
+        };
+        let view = crate::pipeline::repo_view::RepoView::from_target(&repo, code);
         let creds = crate::pipeline::git::RepoCredentials {
             ssh_key_path: Some(agent_clone.config.ssh_key_path.clone()),
-            auth_token: repo.auth_token.clone(),
-            auth_username: repo.auth_username.clone(),
+            auth_token: view.auth_token.clone(),
+            auth_username: view.auth_username.clone(),
         };
         let git_ops =
             crate::pipeline::git::GitOps::new(&agent_clone.config.git_clone_base_path, creds);
-        let repo_path = match git_ops.clone_or_fetch(&repo.git_url, &repo.name) {
+        let repo_path = match git_ops.clone_or_fetch(&view.git_url, &view.name) {
             Ok(p) => p,
             Err(e) => {
                 tracing::error!("Failed to clone repo for embedding build: {e}");

compliance-agent/src/api/handlers/graph.rs

@@ -255,7 +255,7 @@ pub async fn get_file_content(
 
     // Look up the repository to get repo name
     let repo = db
-        .repositories()
+        .onboarded_targets()
         .find_one(doc! { "_id": mongodb::bson::oid::ObjectId::parse_str(&repo_id).ok() })
         .await
         .map_err(|_| StatusCode::INTERNAL_SERVER_ERROR)?
@@ -317,7 +317,7 @@ pub async fn trigger_build(
     let agent_clone = (*agent).clone();
     tokio::spawn(async move {
         let repo = match db
-            .repositories()
+            .onboarded_targets()
             .find_one(doc! { "_id": mongodb::bson::oid::ObjectId::parse_str(&repo_id).ok() })
             .await
         {
@@ -328,14 +328,22 @@ pub async fn trigger_build(
             }
         };
 
+        let code = match repo.code_artifact() {
+            Some(c) => c,
+            None => {
+                tracing::error!("Target {repo_id} has no code artifact for graph build");
+                return;
+            }
+        };
+        let view = crate::pipeline::repo_view::RepoView::from_target(&repo, code);
         let creds = crate::pipeline::git::RepoCredentials {
             ssh_key_path: Some(agent_clone.config.ssh_key_path.clone()),
-            auth_token: repo.auth_token.clone(),
-            auth_username: repo.auth_username.clone(),
+            auth_token: view.auth_token.clone(),
+            auth_username: view.auth_username.clone(),
         };
         let git_ops =
             crate::pipeline::git::GitOps::new(&agent_clone.config.git_clone_base_path, creds);
-        let repo_path = match git_ops.clone_or_fetch(&repo.git_url, &repo.name) {
+        let repo_path = match git_ops.clone_or_fetch(&view.git_url, &view.name) {
             Ok(p) => p,
             Err(e) => {
                 tracing::error!("Failed to clone repo for graph build: {e}");

compliance-agent/src/api/handlers/health.rs

@@ -10,6 +10,18 @@ pub async fn health() -> Json<serde_json::Value> {
     Json(serde_json::json!({ "status": "ok" }))
 }
 
+/// GET /api/v1/settings/ssh-public-key — the agent's SSH deploy public key,
+/// for adding as a read-only deploy key on private git targets.
+#[tracing::instrument(skip_all)]
+pub async fn get_ssh_public_key(
+    axum::extract::Extension(agent): AgentExt,
+) -> Result<Json<serde_json::Value>, axum::http::StatusCode> {
+    let public_path = format!("{}.pub", agent.config.ssh_key_path);
+    let public_key =
+        std::fs::read_to_string(&public_path).map_err(|_| axum::http::StatusCode::NOT_FOUND)?;
+    Ok(Json(serde_json::json!({ "public_key": public_key.trim() })))
+}
+
 #[tracing::instrument(skip_all)]
 pub async fn stats_overview(
     axum::extract::Extension(agent): AgentExt,
@@ -19,7 +31,7 @@ pub async fn stats_overview(
     let db = &db;
 
     let total_repositories = db
-        .repositories()
+        .onboarded_targets()
         .count_documents(doc! {})
         .await
         .unwrap_or(0);

compliance-agent/src/api/handlers/mod.rs

@@ -12,7 +12,6 @@ pub mod notifications;
 pub mod onboarding;
 pub mod pentest_handlers;
 pub use pentest_handlers as pentest;
-pub mod repos;
 pub mod sbom;
 pub mod scans;
 
@@ -21,6 +20,5 @@ pub use dto::*;
 pub use findings::*;
 pub use health::*;
 pub use issues::*;
-pub use repos::*;
 pub use sbom::*;
 pub use scans::*;

compliance-agent/src/api/handlers/onboarding.rs

@@ -5,7 +5,7 @@
 use std::collections::HashMap;
 use std::sync::Arc;
 
-use axum::extract::{Extension, Path, Query};
+use axum::extract::{Extension, Multipart, Path, Query};
 use axum::http::StatusCode;
 use axum::Json;
 use mongodb::bson::{doc, oid::ObjectId, to_bson};
@@ -75,6 +75,9 @@ pub struct UpdateTargetRequest {
     pub scan_config: Option<TargetScanConfig>,
     pub compliance_profile: Option<ComplianceProfile>,
     pub scan_schedule: Option<String>,
+    /// Replace the target's artifacts wholesale (used by the dashboard editor).
+    #[serde(default)]
+    pub artifacts: Option<Vec<ArtifactInput>>,
 }
 
 /// One applicable-scan option, serialized for the wizard.
@@ -214,6 +217,13 @@ pub async fn update_target(
     if let Some(ss) = req.scan_schedule {
         set.insert("scan_schedule", ss);
     }
+    if let Some(arts) = req.artifacts {
+        let built: Vec<Artifact> = arts.iter().map(ArtifactInput::build).collect();
+        set.insert(
+            "artifacts",
+            to_bson(&built).map_err(|_| StatusCode::BAD_REQUEST)?,
+        );
+    }
 
     db.onboarded_targets()
         .update_one(doc! { "_id": oid }, doc! { "$set": set })
@@ -236,15 +246,116 @@ pub async fn delete_target(
         .delete_one(doc! { "_id": oid })
         .await
         .map_err(|_| StatusCode::INTERNAL_SERVER_ERROR)?;
-    // Cascade the collections keyed by repo_id == target id (best-effort).
-    let by_repo = doc! { "repo_id": &id };
-    let _ = db.findings().delete_many(by_repo.clone()).await;
-    let _ = db.scan_runs().delete_many(by_repo.clone()).await;
-    let _ = db.sbom_entries().delete_many(by_repo.clone()).await;
-    let _ = db.cve_alerts().delete_many(by_repo).await;
+    // Cascade all data keyed by repo_id == target id (best-effort).
+    let db = &db;
+    let _ = db.findings().delete_many(doc! { "repo_id": &id }).await;
+    let _ = db.sbom_entries().delete_many(doc! { "repo_id": &id }).await;
+    let _ = db.scan_runs().delete_many(doc! { "repo_id": &id }).await;
+    let _ = db.cve_alerts().delete_many(doc! { "repo_id": &id }).await;
+    let _ = db
+        .tracker_issues()
+        .delete_many(doc! { "repo_id": &id })
+        .await;
+    let _ = db.graph_nodes().delete_many(doc! { "repo_id": &id }).await;
+    let _ = db.graph_edges().delete_many(doc! { "repo_id": &id }).await;
+    let _ = db.graph_builds().delete_many(doc! { "repo_id": &id }).await;
+    let _ = db
+        .impact_analyses()
+        .delete_many(doc! { "repo_id": &id })
+        .await;
+    let _ = db
+        .code_embeddings()
+        .delete_many(doc! { "repo_id": &id })
+        .await;
+    let _ = db
+        .embedding_builds()
+        .delete_many(doc! { "repo_id": &id })
+        .await;
+
+    // DAST targets linked to this target, and all their downstream data.
+    if let Ok(mut cursor) = db.dast_targets().find(doc! { "repo_id": &id }).await {
+        use futures_util::StreamExt;
+        while let Some(Ok(dt)) = cursor.next().await {
+            let dast_target_id = dt.id.map(|oid| oid.to_hex()).unwrap_or_default();
+            if !dast_target_id.is_empty() {
+                cascade_delete_dast_target(db, &dast_target_id).await;
+            }
+        }
+    }
+
+    // Pentest sessions linked directly to this target (not via a DAST target).
+    if let Ok(mut cursor) = db.pentest_sessions().find(doc! { "repo_id": &id }).await {
+        use futures_util::StreamExt;
+        while let Some(Ok(session)) = cursor.next().await {
+            let session_id = session.id.map(|oid| oid.to_hex()).unwrap_or_default();
+            if !session_id.is_empty() {
+                let _ = db
+                    .attack_chain_nodes()
+                    .delete_many(doc! { "session_id": &session_id })
+                    .await;
+                let _ = db
+                    .pentest_messages()
+                    .delete_many(doc! { "session_id": &session_id })
+                    .await;
+                let _ = db
+                    .dast_findings()
+                    .delete_many(doc! { "session_id": &session_id })
+                    .await;
+            }
+        }
+    }
+    let _ = db
+        .pentest_sessions()
+        .delete_many(doc! { "repo_id": &id })
+        .await;
+
     Ok(Json(serde_json::json!({ "status": "deleted" })))
 }
 
+/// Delete a DAST target and everything downstream of it (pentest sessions +
+/// their attack chains / messages / findings, DAST scan runs + findings).
+async fn cascade_delete_dast_target(db: &crate::database::Database, target_id: &str) {
+    use futures_util::StreamExt;
+    if let Ok(mut cursor) = db
+        .pentest_sessions()
+        .find(doc! { "target_id": target_id })
+        .await
+    {
+        while let Some(Ok(session)) = cursor.next().await {
+            let session_id = session.id.map(|oid| oid.to_hex()).unwrap_or_default();
+            if !session_id.is_empty() {
+                let _ = db
+                    .attack_chain_nodes()
+                    .delete_many(doc! { "session_id": &session_id })
+                    .await;
+                let _ = db
+                    .pentest_messages()
+                    .delete_many(doc! { "session_id": &session_id })
+                    .await;
+                let _ = db
+                    .dast_findings()
+                    .delete_many(doc! { "session_id": &session_id })
+                    .await;
+            }
+        }
+    }
+    let _ = db
+        .pentest_sessions()
+        .delete_many(doc! { "target_id": target_id })
+        .await;
+    let _ = db
+        .dast_findings()
+        .delete_many(doc! { "target_id": target_id })
+        .await;
+    let _ = db
+        .dast_scan_runs()
+        .delete_many(doc! { "target_id": target_id })
+        .await;
+    if let Ok(oid) = mongodb::bson::oid::ObjectId::parse_str(target_id) {
+        let _ = db.dast_targets().delete_one(doc! { "_id": oid }).await;
+    }
+}
+
 /// POST /api/v1/targets/{id}/artifacts — attach an artifact (by reference).
 #[tracing::instrument(skip_all, fields(target_id = %id))]
 pub async fn add_artifact(
@@ -266,6 +377,116 @@ pub async fn add_artifact(
     get_target(Extension(agent), tenant, Path(id)).await
 }
 
+/// POST /api/v1/targets/{id}/artifacts/upload — attach an artifact by uploading
+/// its file (PLC project, firmware image, source archive, mobile package). The
+/// bytes are written to the artifact blob store and referenced by `stored_path`,
+/// so ingest resolves them locally (no URL fetch).
+///
+/// Multipart fields: `file` (required), `kind` (required, snake_case
+/// `ArtifactKind`), `plc_format` (optional, for PLC projects).
+#[tracing::instrument(skip_all, fields(target_id = %id))]
+pub async fn upload_artifact(
+    Extension(agent): AgentExt,
+    tenant: TenantCtx,
+    Path(id): Path<String>,
+    mut multipart: Multipart,
+) -> Result<Json<ApiResponse<OnboardedTarget>>, StatusCode> {
+    let oid = parse_oid(&id)?;
+    let db = tenant_db(&agent, &tenant).await?;
+    if db
+        .onboarded_targets()
+        .find_one(doc! { "_id": oid })
+        .await
+        .map_err(|_| StatusCode::INTERNAL_SERVER_ERROR)?
+        .is_none()
+    {
+        return Err(StatusCode::NOT_FOUND);
+    }
+
+    let mut kind: Option<ArtifactKind> = None;
+    let mut plc_format: Option<PlcFormat> = None;
+    let mut filename = String::from("upload.bin");
+    let mut bytes: Option<axum::body::Bytes> = None;
+
+    while let Some(field) = multipart
+        .next_field()
+        .await
+        .map_err(|_| StatusCode::BAD_REQUEST)?
+    {
+        match field.name().unwrap_or("") {
+            "kind" => {
+                let v = field.text().await.map_err(|_| StatusCode::BAD_REQUEST)?;
+                kind = parse_enum(&v);
+            }
+            "plc_format" => {
+                let v = field.text().await.map_err(|_| StatusCode::BAD_REQUEST)?;
+                plc_format = parse_enum(&v);
+            }
+            "file" => {
+                if let Some(fname) = field.file_name() {
+                    filename = fname.to_string();
+                }
+                bytes = Some(field.bytes().await.map_err(|_| StatusCode::BAD_REQUEST)?);
+            }
+            _ => {}
+        }
+    }
+
+    let (Some(kind), Some(bytes)) = (kind, bytes) else {
+        return Err(StatusCode::BAD_REQUEST);
+    };
+
+    // Store the uploaded bytes under the artifact blob store.
+    let safe_name: String = filename
+        .chars()
+        .map(|c| {
+            if c.is_ascii_alphanumeric() || matches!(c, '.' | '-' | '_') {
+                c
+            } else {
+                '_'
+            }
+        })
+        .collect();
+    let dir = std::path::Path::new(&agent.config.artifact_store_base_path)
+        .join("uploads")
+        .join(&id);
+    std::fs::create_dir_all(&dir).map_err(|_| StatusCode::INTERNAL_SERVER_ERROR)?;
+    let dest = dir.join(format!("{}_{safe_name}", uuid::Uuid::new_v4()));
+    std::fs::write(&dest, bytes.as_ref()).map_err(|_| StatusCode::INTERNAL_SERVER_ERROR)?;
+
+    // Build the artifact for this kind, referencing the stored file.
+    let mut artifact = match kind {
+        ArtifactKind::PlcProject => Artifact::plc_project(
+            filename.clone(),
+            plc_format.unwrap_or(PlcFormat::PlcopenXml),
+        ),
+        ArtifactKind::FirmwareImage => Artifact::firmware_image(filename.clone()),
+        ArtifactKind::SourceArchive => Artifact::source_archive(filename.clone()),
+        ArtifactKind::MobilePackage => Artifact::mobile_package(filename.clone()),
+        // Non-file kinds (git repo, live URL, container ref, text) use the JSON
+        // add-artifact endpoint, not upload.
+        _ => return Err(StatusCode::BAD_REQUEST),
+    };
+    artifact.stored_path = Some(dest.to_string_lossy().to_string());
+    artifact.size_bytes = Some(bytes.len() as u64);
+
+    let artifact_bson = to_bson(&artifact).map_err(|_| StatusCode::INTERNAL_SERVER_ERROR)?;
+    db.onboarded_targets()
+        .update_one(
+            doc! { "_id": oid },
+            doc! { "$push": { "artifacts": artifact_bson }, "$set": { "updated_at": mongodb::bson::DateTime::now() } },
+        )
+        .await
+        .map_err(|_| StatusCode::INTERNAL_SERVER_ERROR)?;
+
+    get_target(Extension(agent), tenant, Path(id)).await
+}
+
+/// Deserialize a snake_case enum value from a plain string.
+fn parse_enum<T: for<'de> Deserialize<'de>>(s: &str) -> Option<T> {
+    serde_json::from_value(serde_json::Value::String(s.to_string())).ok()
+}
+
 /// GET /api/v1/targets/{id}/applicable-scans — the scan-applicability matrix.
 #[tracing::instrument(skip_all, fields(target_id = %id))]
 pub async fn applicable_scans_for_target(

compliance-agent/src/api/handlers/pentest_handlers/session.rs

@@ -113,14 +113,14 @@ pub async fn create_session(
         session.config = Some(config.clone());
         session.repo_id = target.repo_id.clone();
 
-        // Resolve repo_id from git_repo_url if provided
+        // Resolve repo_id (target id) from git_repo_url if provided
         if let Some(ref git_url) = config.git_repo_url {
-            if let Ok(Some(repo)) = db
-                .repositories()
-                .find_one(doc! { "git_url": git_url })
+            if let Ok(Some(target)) = db
+                .onboarded_targets()
+                .find_one(doc! { "artifacts.source_ref": git_url })
                 .await
             {
-                session.repo_id = repo.id.map(|oid| oid.to_hex());
+                session.repo_id = target.id.map(|oid| oid.to_hex());
             }
         }
 
@@ -380,17 +380,20 @@ pub async fn lookup_repo(
 ) -> Result<Json<ApiResponse<serde_json::Value>>, StatusCode> {
     let db = tenant_db(&agent, &tenant).await?;
     let repo = db
-        .repositories()
-        .find_one(doc! { "git_url": &params.url })
+        .onboarded_targets()
+        .find_one(doc! { "artifacts.source_ref": &params.url })
         .await
         .map_err(|_| StatusCode::INTERNAL_SERVER_ERROR)?;
 
     let data = match repo {
-        Some(r) => serde_json::json!({
-            "name": r.name,
-            "default_branch": r.default_branch,
-            "last_scanned_commit": r.last_scanned_commit,
-        }),
+        Some(r) => {
+            let git = r.code_artifact().and_then(|c| c.git.as_ref());
+            serde_json::json!({
+                "name": r.name,
+                "default_branch": git.map(|g| g.default_branch.clone()),
+                "last_scanned_commit": git.and_then(|g| g.last_scanned_commit.clone()),
+            })
+        }
         None => serde_json::Value::Null,
     };
 

compliance-agent/src/api/handlers/repos.rs

@@ -1,339 +0,0 @@
-use axum::extract::{Extension, Path, Query};
-use axum::http::StatusCode;
-use axum::Json;
-use mongodb::bson::doc;
-
-use super::dto::*;
-use compliance_core::models::*;
-use compliance_core::tenant_ctx::TenantCtx;
-
-#[tracing::instrument(skip_all)]
-pub async fn list_repositories(
-    Extension(agent): AgentExt,
-    tenant: TenantCtx,
-    Query(params): Query<PaginationParams>,
-) -> ApiResult<Vec<TrackedRepository>> {
-    let db = tenant_db(&agent, &tenant).await?;
-    let db = &db;
-    let skip = (params.page.saturating_sub(1)) * params.limit as u64;
-    let total = db
-        .repositories()
-        .count_documents(doc! {})
-        .await
-        .unwrap_or(0);
-
-    let repos = match db
-        .repositories()
-        .find(doc! {})
-        .skip(skip)
-        .limit(params.limit)
-        .await
-    {
-        Ok(cursor) => collect_cursor_async(cursor).await,
-        Err(e) => {
-            tracing::warn!("Failed to fetch repositories: {e}");
-            Vec::new()
-        }
-    };
-
-    Ok(Json(ApiResponse {
-        data: repos,
-        total: Some(total),
-        page: Some(params.page),
-    }))
-}
-
-#[tracing::instrument(skip_all)]
-pub async fn add_repository(
-    Extension(agent): AgentExt,
-    tenant: TenantCtx,
-    Json(req): Json<AddRepositoryRequest>,
-) -> Result<Json<ApiResponse<TrackedRepository>>, (StatusCode, String)> {
-    // Validate repository access before saving
-    let creds = crate::pipeline::git::RepoCredentials {
-        ssh_key_path: Some(agent.config.ssh_key_path.clone()),
-        auth_token: req.auth_token.clone(),
-        auth_username: req.auth_username.clone(),
-    };
-
-    if let Err(e) = crate::pipeline::git::GitOps::test_access(&req.git_url, &creds) {
-        return Err((
-            StatusCode::BAD_REQUEST,
-            format!("Cannot access repository: {e}"),
-        ));
-    }
-
-    let mut repo = TrackedRepository::new(req.name, req.git_url);
-    repo.default_branch = req.default_branch;
-    repo.auth_token = req.auth_token;
-    repo.auth_username = req.auth_username;
-    repo.tracker_type = req.tracker_type;
-    repo.tracker_owner = req.tracker_owner;
-    repo.tracker_repo = req.tracker_repo;
-    repo.tracker_token = req.tracker_token;
-    repo.scan_schedule = req.scan_schedule;
-
-    let db = tenant_db(&agent, &tenant)
-        .await
-        .map_err(|s| (s, "failed to acquire tenant database".to_string()))?;
-    db.repositories().insert_one(&repo).await.map_err(|_| {
-        (
-            StatusCode::CONFLICT,
-            "Repository already exists".to_string(),
-        )
-    })?;
-
-    Ok(Json(ApiResponse {
-        data: repo,
-        total: None,
-        page: None,
-    }))
-}
-
-#[tracing::instrument(skip_all, fields(repo_id = %id))]
-pub async fn update_repository(
-    Extension(agent): AgentExt,
-    tenant: TenantCtx,
-    Path(id): Path<String>,
-    Json(req): Json<UpdateRepositoryRequest>,
-) -> Result<Json<serde_json::Value>, StatusCode> {
-    let oid = mongodb::bson::oid::ObjectId::parse_str(&id).map_err(|_| StatusCode::BAD_REQUEST)?;
-    let db = tenant_db(&agent, &tenant).await?;
-
-    let mut set_doc = doc! { "updated_at": mongodb::bson::DateTime::now() };
-
-    if let Some(name) = &req.name {
-        set_doc.insert("name", name);
-    }
-    if let Some(branch) = &req.default_branch {
-        set_doc.insert("default_branch", branch);
-    }
-    if let Some(token) = &req.auth_token {
-        set_doc.insert("auth_token", token);
-    }
-    if let Some(username) = &req.auth_username {
-        set_doc.insert("auth_username", username);
-    }
-    if let Some(tracker_type) = &req.tracker_type {
-        set_doc.insert("tracker_type", tracker_type.to_string());
-    }
-    if let Some(owner) = &req.tracker_owner {
-        set_doc.insert("tracker_owner", owner);
-    }
-    if let Some(repo) = &req.tracker_repo {
-        set_doc.insert("tracker_repo", repo);
-    }
-    if let Some(token) = &req.tracker_token {
-        set_doc.insert("tracker_token", token);
-    }
-    if let Some(schedule) = &req.scan_schedule {
-        set_doc.insert("scan_schedule", schedule);
-    }
-
-    let result = db
-        .repositories()
-        .update_one(doc! { "_id": oid }, doc! { "$set": set_doc })
-        .await
-        .map_err(|e| {
-            tracing::warn!("Failed to update repository: {e}");
-            StatusCode::INTERNAL_SERVER_ERROR
-        })?;
-
-    if result.matched_count == 0 {
-        return Err(StatusCode::NOT_FOUND);
-    }
-
-    Ok(Json(serde_json::json!({ "status": "updated" })))
-}
-
-#[tracing::instrument(skip_all)]
-pub async fn get_ssh_public_key(
-    Extension(agent): AgentExt,
-) -> Result<Json<serde_json::Value>, StatusCode> {
-    let public_path = format!("{}.pub", agent.config.ssh_key_path);
-    let public_key = std::fs::read_to_string(&public_path).map_err(|_| StatusCode::NOT_FOUND)?;
-    Ok(Json(serde_json::json!({ "public_key": public_key.trim() })))
-}
-
-#[tracing::instrument(skip_all, fields(repo_id = %id))]
-pub async fn trigger_scan(
-    Extension(agent): AgentExt,
-    tenant: TenantCtx,
-    Path(id): Path<String>,
-) -> Result<Json<serde_json::Value>, StatusCode> {
-    let agent_clone = (*agent).clone();
-    let tenant_id = tenant.0.tenant_id.clone();
-    tokio::spawn(async move {
-        if let Err(e) = agent_clone
-            .run_scan(&tenant_id, &id, ScanTrigger::Manual)
-            .await
-        {
-            tracing::error!("Manual scan failed for {id}: {e}");
-        }
-    });
-
-    Ok(Json(serde_json::json!({ "status": "scan_triggered" })))
-}
-
-/// Return the webhook secret for a repository (used by dashboard to display it)
-pub async fn get_webhook_config(
-    Extension(agent): AgentExt,
-    tenant: TenantCtx,
-    Path(id): Path<String>,
-) -> Result<Json<serde_json::Value>, StatusCode> {
-    let oid = mongodb::bson::oid::ObjectId::parse_str(&id).map_err(|_| StatusCode::BAD_REQUEST)?;
-    let db = tenant_db(&agent, &tenant).await?;
-    let repo = db
-        .repositories()
-        .find_one(doc! { "_id": oid })
-        .await
-        .map_err(|_| StatusCode::INTERNAL_SERVER_ERROR)?
-        .ok_or(StatusCode::NOT_FOUND)?;
-
-    let tracker_type = repo
-        .tracker_type
-        .as_ref()
-        .map(|t| t.to_string())
-        .unwrap_or_else(|| "gitea".to_string());
-
-    Ok(Json(serde_json::json!({
-        "webhook_secret": repo.webhook_secret,
-        "tracker_type": tracker_type,
-    })))
-}
-
-#[tracing::instrument(skip_all, fields(repo_id = %id))]
-pub async fn delete_repository(
-    Extension(agent): AgentExt,
-    tenant: TenantCtx,
-    Path(id): Path<String>,
-) -> Result<Json<serde_json::Value>, StatusCode> {
-    let oid = mongodb::bson::oid::ObjectId::parse_str(&id).map_err(|_| StatusCode::BAD_REQUEST)?;
-    let db = tenant_db(&agent, &tenant).await?;
-    let db = &db;
-
-    // Delete the repository
-    let result = db
-        .repositories()
-        .delete_one(doc! { "_id": oid })
-        .await
-        .map_err(|_| StatusCode::INTERNAL_SERVER_ERROR)?;
-
-    if result.deleted_count == 0 {
-        return Err(StatusCode::NOT_FOUND);
-    }
-
-    // Cascade delete all related data
-    let _ = db.findings().delete_many(doc! { "repo_id": &id }).await;
-    let _ = db.sbom_entries().delete_many(doc! { "repo_id": &id }).await;
-    let _ = db.scan_runs().delete_many(doc! { "repo_id": &id }).await;
-    let _ = db.cve_alerts().delete_many(doc! { "repo_id": &id }).await;
-    let _ = db
-        .tracker_issues()
-        .delete_many(doc! { "repo_id": &id })
-        .await;
-    let _ = db.graph_nodes().delete_many(doc! { "repo_id": &id }).await;
-    let _ = db.graph_edges().delete_many(doc! { "repo_id": &id }).await;
-    let _ = db.graph_builds().delete_many(doc! { "repo_id": &id }).await;
-    let _ = db
-        .impact_analyses()
-        .delete_many(doc! { "repo_id": &id })
-        .await;
-    let _ = db
-        .code_embeddings()
-        .delete_many(doc! { "repo_id": &id })
-        .await;
-    let _ = db
-        .embedding_builds()
-        .delete_many(doc! { "repo_id": &id })
-        .await;
-
-    // Cascade delete DAST targets linked to this repo, and all their downstream data
-    // (scan runs, findings, pentest sessions, attack chains, messages)
-    if let Ok(mut cursor) = db.dast_targets().find(doc! { "repo_id": &id }).await {
-        use futures_util::StreamExt;
-        while let Some(Ok(target)) = cursor.next().await {
-            let target_id = target.id.map(|oid| oid.to_hex()).unwrap_or_default();
-            if !target_id.is_empty() {
-                cascade_delete_dast_target(db, &target_id).await;
-            }
-        }
-    }
-
-    // Also delete pentest sessions linked directly to this repo (not via target)
-    if let Ok(mut cursor) = db.pentest_sessions().find(doc! { "repo_id": &id }).await {
-        use futures_util::StreamExt;
-        while let Some(Ok(session)) = cursor.next().await {
-            let session_id = session.id.map(|oid| oid.to_hex()).unwrap_or_default();
-            if !session_id.is_empty() {
-                let _ = db
-                    .attack_chain_nodes()
-                    .delete_many(doc! { "session_id": &session_id })
-                    .await;
-                let _ = db
-                    .pentest_messages()
-                    .delete_many(doc! { "session_id": &session_id })
-                    .await;
-                // Delete DAST findings produced by this session
-                let _ = db
-                    .dast_findings()
-                    .delete_many(doc! { "session_id": &session_id })
-                    .await;
-            }
-        }
-    }
-    let _ = db
-        .pentest_sessions()
-        .delete_many(doc! { "repo_id": &id })
-        .await;
-
-    Ok(Json(serde_json::json!({ "status": "deleted" })))
-}
-
-/// Cascade-delete a DAST target and all its downstream data.
-async fn cascade_delete_dast_target(db: &crate::database::Database, target_id: &str) {
-    // Delete pentest sessions for this target (and their attack chains + messages)
-    if let Ok(mut cursor) = db
-        .pentest_sessions()
-        .find(doc! { "target_id": target_id })
-        .await
-    {
-        use futures_util::StreamExt;
-        while let Some(Ok(session)) = cursor.next().await {
-            let session_id = session.id.map(|oid| oid.to_hex()).unwrap_or_default();
-            if !session_id.is_empty() {
-                let _ = db
-                    .attack_chain_nodes()
-                    .delete_many(doc! { "session_id": &session_id })
-                    .await;
-                let _ = db
-                    .pentest_messages()
-                    .delete_many(doc! { "session_id": &session_id })
-                    .await;
-                let _ = db
-                    .dast_findings()
-                    .delete_many(doc! { "session_id": &session_id })
-                    .await;
-            }
-        }
-    }
-    let _ = db
-        .pentest_sessions()
-        .delete_many(doc! { "target_id": target_id })
-        .await;
-
-    // Delete DAST scan runs and their findings
-    let _ = db
-        .dast_findings()
-        .delete_many(doc! { "target_id": target_id })
-        .await;
-    let _ = db
-        .dast_scan_runs()
-        .delete_many(doc! { "target_id": target_id })
-        .await;
-
-    // Delete the target itself
-    if let Ok(oid) = mongodb::bson::oid::ObjectId::parse_str(target_id) {
-        let _ = db.dast_targets().delete_one(doc! { "_id": oid }).await;
-    }
-}

compliance-agent/src/api/handlers/sbom.rs

@@ -282,7 +282,7 @@ pub async fn license_summary(
             }
         })
         .collect();
-    summaries.sort_by(|a, b| b.count.cmp(&a.count));
+    summaries.sort_by_key(|s| std::cmp::Reverse(s.count));
 
     Ok(Json(ApiResponse {
         data: summaries,

compliance-agent/src/api/routes.rs

@@ -11,20 +11,6 @@ pub fn build_router() -> Router {
             "/api/v1/settings/ssh-public-key",
             get(handlers::get_ssh_public_key),
         )
-        .route("/api/v1/repositories", get(handlers::list_repositories))
-        .route("/api/v1/repositories", post(handlers::add_repository))
-        .route(
-            "/api/v1/repositories/{id}/scan",
-            post(handlers::trigger_scan),
-        )
-        .route(
-            "/api/v1/repositories/{id}",
-            delete(handlers::delete_repository).patch(handlers::update_repository),
-        )
-        .route(
-            "/api/v1/repositories/{id}/webhook-config",
-            get(handlers::get_webhook_config),
-        )
         // Unified onboarding targets (#131).
         .route(
             "/api/v1/targets",
@@ -40,6 +26,10 @@ pub fn build_router() -> Router {
             "/api/v1/targets/{id}/artifacts",
             post(handlers::onboarding::add_artifact),
         )
+        .route(
+            "/api/v1/targets/{id}/artifacts/upload",
+            post(handlers::onboarding::upload_artifact),
+        )
         .route(
             "/api/v1/targets/{id}/applicable-scans",
             get(handlers::onboarding::applicable_scans_for_target),

compliance-agent/src/api/server.rs

@@ -1,6 +1,6 @@
 use std::sync::Arc;
 
-use axum::extract::Request;
+use axum::extract::{DefaultBodyLimit, Request};
 use axum::http::HeaderValue;
 use axum::middleware::Next;
 use axum::response::Response;
@@ -74,6 +74,9 @@ pub async fn start_api_server(agent: ComplianceAgent, port: u16) -> Result<(), A
 
     let mut app = routes::build_router()
         .merge(admin_router)
+        // Allow large artifact uploads (PLC .projectarchive, firmware images,
+        // mobile packages) — axum's default request-body limit is only 2 MiB.
+        .layer(DefaultBodyLimit::max(512 * 1024 * 1024))
         .layer(Extension(Arc::new(agent.clone())))
         .layer(CorsLayer::permissive())
         .layer(TraceLayer::new_for_http())

compliance-agent/src/config.rs

@@ -47,12 +47,6 @@ pub fn load_config() -> Result<AgentConfig, AgentError> {
             .unwrap_or_else(|| "/tmp/compliance-scanner/repos".to_string()),
         artifact_store_base_path: env_var_opt("ARTIFACT_STORE_BASE_PATH")
             .unwrap_or_else(|| "/data/compliance-scanner/artifacts".to_string()),
-        // Defaults ON: the unified onboarded-target pipeline is now the primary
-        // path (no legacy `repositories` data in production). Set
-        // `UNIFIED_PIPELINE=0` to fall back to the legacy repository pipeline.
-        unified_pipeline: env_var_opt("UNIFIED_PIPELINE")
-            .map(|v| v == "1" || v.eq_ignore_ascii_case("true"))
-            .unwrap_or(true),
         ssh_key_path: env_var_opt("SSH_KEY_PATH")
             .unwrap_or_else(|| "/data/compliance-scanner/ssh/id_ed25519".to_string()),
         keycloak_url: env_var_opt("KEYCLOAK_URL"),

compliance-agent/src/database.rs

@@ -249,16 +249,6 @@ impl Database {
     }
 
     pub async fn ensure_indexes(&self) -> Result<(), AgentError> {
-        // repositories: unique git_url
-        self.repositories()
-            .create_index(
-                IndexModel::builder()
-                    .keys(doc! { "git_url": 1 })
-                    .options(IndexOptions::builder().unique(true).build())
-                    .build(),
-            )
-            .await?;
-
         // findings: unique fingerprint
         self.findings()
             .create_index(
@@ -479,10 +469,6 @@ impl Database {
         Ok(())
     }
 
-    pub fn repositories(&self) -> Collection<TrackedRepository> {
-        self.inner.collection("repositories")
-    }
-
     pub fn findings(&self) -> Collection<Finding> {
         self.inner.collection("findings")
     }

compliance-agent/src/ingest/mod.rs

@@ -162,14 +162,27 @@ fn ingest_blob(
         match blob::extract_zip(&stored, &dest) {
             Ok(()) => dest,
             Err(e) => {
-                // Not a zip (e.g. a tar.gz source archive) — keep the blob and
-                // note it so later stages can decide what to do.
+                // Not a zip container — this is a single uploaded file (e.g. a
+                // `.st`/`.xml` PLC project or a `.tar.gz`). The content-addressed
+                // blob has no extension, so materialize it into a working dir
+                // under its original name; extension-based scanners (PLC) can then
+                // discover it and report a readable path.
                 facts.push(DetectedFact::new(
                     "archive_unextracted",
                     e.to_string(),
                     "ingest",
                 ));
-                stored.clone()
+                match materialize_single(&stored, &dest, &blob_file_name(artifact)) {
+                    Ok(dir) => dir,
+                    Err(copy_err) => {
+                        facts.push(DetectedFact::new(
+                            "materialize_failed",
+                            copy_err.to_string(),
+                            "ingest",
+                        ));
+                        stored.clone()
+                    }
+                }
             }
         }
     } else {
@@ -186,6 +199,27 @@ fn ingest_blob(
     })
 }
 
+/// Copy a stored blob into `dest`/`name`, returning `dest`. Used when an
+/// "extractable" artifact turns out to be a single file rather than an archive.
+fn materialize_single(stored: &Path, dest: &Path, name: &str) -> Result<PathBuf, AgentError> {
+    std::fs::create_dir_all(dest)?;
+    std::fs::copy(stored, dest.join(name))?;
+    Ok(dest.to_path_buf())
+}
+
+/// A safe, single-segment file name for an artifact, preserving the original
+/// extension so scanners can identify it. Derives from `source_ref` (the
+/// uploaded/original file name); `file_name` strips any directory components,
+/// so this is traversal-safe. Falls back to the artifact id.
+fn blob_file_name(artifact: &Artifact) -> String {
+    Path::new(&artifact.source_ref)
+        .file_name()
+        .and_then(|n| n.to_str())
+        .map(str::to_string)
+        .filter(|s| !s.is_empty())
+        .unwrap_or_else(|| format!("artifact-{}", artifact.id))
+}
+
 /// An artifact with no on-disk form: record a single fact, no hash/path.
 fn metadata_only(artifact: &Artifact, fact: DetectedFact) -> IngestedArtifact {
     IngestedArtifact {
@@ -331,4 +365,52 @@ mod tests {
         assert_eq!(creds.ssh_key_path.as_deref(), Some("/default/ssh/key"));
         assert!(creds.auth_token.is_none());
     }
+
+    /// A single uploaded PLC file (not an archive) must land in a working dir
+    /// under its original name so the PLC scanner can discover it by extension
+    /// and report a readable path — the demo's upload → scan path.
+    #[test]
+    fn single_uploaded_plc_file_is_materialized_and_scannable() {
+        use compliance_core::models::PlcFormat;
+
+        let scratch = Scratch::new();
+        let store = scratch.0.join("store");
+        // Simulate the upload handler: bytes written to an `uploads/` path,
+        // `source_ref` carrying the original (clean) file name.
+        let uploads = scratch.0.join("uploads");
+        std::fs::create_dir_all(&uploads).expect("mkdir uploads");
+        let uploaded = uploads.join("a1b2c3_pump_station.st");
+        std::fs::write(
+            &uploaded,
+            "PROGRAM P\nVAR\n  ApiKey : STRING := 'sk-live-1234';\nEND_VAR\nEND_PROGRAM\n",
+        )
+        .expect("write st");
+
+        let mut artifact = Artifact::plc_project("pump_station.st", PlcFormat::StructuredText);
+        artifact.stored_path = Some(uploaded.to_string_lossy().to_string());
+
+        let ctx = ctx_for(&store, "t-plc");
+        let out = ingest_artifact(&artifact, &ctx).expect("ingest");
+
+        // Working path is a directory (not the extensionless blob) holding the
+        // file under its original name.
+        let wp = out.working_path.expect("working path");
+        assert!(wp.is_dir(), "expected a working dir, got {wp:?}");
+        assert!(wp.join("pump_station.st").is_file());
+
+        // The PLC scanner finds the hardcoded credential and reports a clean path.
+        let findings = crate::pipeline::plc::analyze_tree(&wp, "t-plc");
+        assert!(
+            !findings.is_empty(),
+            "scanner should flag the uploaded file"
+        );
+        assert!(findings
+            .iter()
+            .any(|f| f.rule_id.as_deref() == Some("plc-hardcoded-credential")));
+        assert_eq!(
+            findings[0].file_path.as_deref(),
+            Some("pump_station.st"),
+            "finding should reference the original file name"
+        );
+    }
 }

compliance-agent/src/lib.rs

@@ -8,7 +8,6 @@ pub mod database;
 pub mod error;
 pub mod ingest;
 pub mod llm;
-pub mod migrate;
 pub mod pentest;
 pub mod pipeline;
 pub mod rag;

compliance-agent/src/main.rs

@@ -1,50 +1,4 @@
-use compliance_agent::{agent, api, config, database, migrate, scheduler, ssh, webhooks};
-
-/// Run the `migrate onboarding` subcommand and exit. Backfills (or reverts) the
-/// unified `onboarded_targets` collection per tenant.
-///
-/// Usage: `compliance-agent migrate onboarding [--all | --tenant <id>] [--dry-run] [--revert]`
-async fn run_migration(
-    args: &[String],
-    pool: &database::DatabasePool,
-) -> Result<(), compliance_agent::error::AgentError> {
-    if args.get(2).map(String::as_str) != Some("onboarding") {
-        eprintln!(
-            "usage: compliance-agent migrate onboarding [--all | --tenant <id>] [--dry-run] [--revert]"
-        );
-        std::process::exit(2);
-    }
-    let has = |flag: &str| args.iter().any(|a| a == flag);
-    let dry_run = has("--dry-run");
-    let revert = has("--revert");
-    let tenant = args
-        .iter()
-        .position(|a| a == "--tenant")
-        .and_then(|i| args.get(i + 1))
-        .cloned();
-
-    let tenants: Vec<String> = if has("--all") {
-        pool.list_tenant_ids().await?
-    } else if let Some(t) = tenant {
-        vec![t]
-    } else {
-        eprintln!("specify --all or --tenant <id>");
-        std::process::exit(2);
-    };
-
-    for tenant_id in tenants {
-        let db = pool.for_tenant_id(&tenant_id).await?;
-        if revert {
-            migrate::onboarding::revert(&db).await?;
-            println!("[{tenant_id}] reverted onboarding backfill");
-        } else {
-            let report = migrate::onboarding::backfill_onboarded_targets(&db, dry_run).await?;
-            let prefix = if dry_run { "(dry-run) " } else { "" };
-            println!("[{tenant_id}] {prefix}{report:?}");
-        }
-    }
-    Ok(())
-}
+use compliance_agent::{agent, api, config, database, scheduler, ssh, webhooks};
 
 #[tokio::main]
 async fn main() -> Result<(), Box<dyn std::error::Error>> {
@@ -77,13 +31,6 @@ async fn main() -> Result<(), Box<dyn std::error::Error>> {
     let db_pool =
         database::DatabasePool::connect(&config.mongodb_uri, &config.mongodb_database).await?;
 
-    // One-shot subcommands run and exit without starting the servers.
-    let args: Vec<String> = std::env::args().collect();
-    if args.get(1).map(String::as_str) == Some("migrate") {
-        run_migration(&args, &db_pool).await?;
-        return Ok(());
-    }
-
     let agent = agent::ComplianceAgent::new(config.clone(), db_pool);
 
     tracing::info!("Starting scheduler...");

compliance-agent/src/migrate/mod.rs

@@ -1,8 +0,0 @@
-//! One-time data migrations.
-//!
-//! Currently just the onboarding backfill ([`onboarding`]), which folds the
-//! legacy `repositories` and `dast_targets` collections into the unified
-//! `onboarded_targets` collection, preserving `_id` so every downstream record
-//! keyed by `repo_id` / `target_id` keeps resolving.
-
-pub mod onboarding;

compliance-agent/src/migrate/onboarding.rs

@@ -1,406 +0,0 @@
-//! Backfill: legacy `repositories` + `dast_targets` → `onboarded_targets`.
-//!
-//! The transforms here are **id-preserving**: an [`OnboardedTarget`] keeps the
-//! same `_id` as the `TrackedRepository` / `DastTarget` it came from, so every
-//! downstream collection keyed by that hex id (findings, sbom, scan_runs,
-//! graph, dast_*, pentest_*) keeps resolving with zero row rewrites, and
-//! existing webhook URLs keep working. The mapping functions are pure and unit
-//! tested; the DB orchestration (idempotent per-tenant backfill + revert) is a
-//! thin driver over them.
-
-use compliance_core::models::{
-    Artifact, ArtifactKind, DastTarget, DastTargetType, GitArtifactConfig, IssueTrackerConfig,
-    OnboardedTarget, TargetType, TrackedRepository, WebArtifactConfig,
-};
-use futures_util::TryStreamExt;
-use mongodb::bson::{doc, Document};
-
-use crate::database::Database;
-use crate::error::AgentError;
-
-/// Marker id in `schema_migrations` recording that the backfill has run.
-const MIGRATION_MARKER: &str = "onboarding_backfill_v1";
-
-/// Summary of a backfill run.
-#[derive(Debug, Clone, Default, PartialEq, Eq)]
-pub struct MigrationReport {
-    /// Repositories turned into onboarded targets.
-    pub repos_migrated: u64,
-    /// DAST targets folded into an existing (repo-linked) target as a LiveUrl.
-    pub dast_targets_folded: u64,
-    /// DAST targets with no repo link, migrated as standalone targets.
-    pub dast_targets_standalone: u64,
-    /// Records skipped because a target with that `_id` already existed.
-    pub skipped_existing: u64,
-}
-
-/// Map a legacy `DastTargetType` to a unified [`TargetType`]. REST/GraphQL APIs
-/// are backend services; a browser app is a web app.
-fn target_type_for_dast(kind: &DastTargetType) -> TargetType {
-    match kind {
-        DastTargetType::WebApp => TargetType::WebApp,
-        DastTargetType::RestApi | DastTargetType::GraphQl => TargetType::BackendService,
-    }
-}
-
-/// Build the LiveUrl artifact for a DAST target (its base URL + crawl config +
-/// auth). Shared by fold-in and standalone migration.
-pub fn dast_to_artifact(dast: &DastTarget) -> Artifact {
-    let mut artifact = Artifact::live_url(dast.base_url.clone());
-    artifact.web = Some(WebArtifactConfig {
-        target_kind: dast.target_type.clone(),
-        excluded_paths: dast.excluded_paths.clone(),
-        max_crawl_depth: dast.max_crawl_depth,
-        rate_limit: dast.rate_limit,
-        allow_destructive: dast.allow_destructive,
-    });
-    artifact.auth = dast.auth_config.clone().map(Into::into);
-    artifact
-}
-
-/// Map a `TrackedRepository` to an onboarded target, preserving `_id`. The git
-/// remote becomes a `GitRepo` artifact carrying the repo's branch, watermark,
-/// and auth; tracker config folds into `scan_config`.
-///
-/// `target_type` is a safe default (`BackendService`) — the classifier can
-/// refine it later; `classification` is left `None` (unconfirmed).
-pub fn repo_to_target(repo: &TrackedRepository) -> OnboardedTarget {
-    let mut target = OnboardedTarget::new(repo.name.clone(), TargetType::BackendService);
-    target.id = repo.id;
-
-    let mut artifact = Artifact::git_repo(repo.git_url.clone(), repo.default_branch.clone());
-    artifact.git = Some(GitArtifactConfig {
-        default_branch: repo.default_branch.clone(),
-        last_scanned_commit: repo.last_scanned_commit.clone(),
-        local_path: repo.local_path.clone(),
-    });
-    if repo.auth_token.is_some() || repo.auth_username.is_some() {
-        artifact.auth = Some(compliance_core::models::ArtifactAuth {
-            method: "token".to_string(),
-            username: repo.auth_username.clone(),
-            secret: repo.auth_token.clone(),
-            ..Default::default()
-        });
-    }
-    target.artifacts.push(artifact);
-
-    if repo.tracker_type.is_some() {
-        target.scan_config.issue_tracker = Some(IssueTrackerConfig {
-            tracker_type: repo.tracker_type.clone(),
-            owner: repo.tracker_owner.clone(),
-            repo: repo.tracker_repo.clone(),
-            token: repo.tracker_token.clone(),
-        });
-    }
-
-    target.scan_schedule = repo.scan_schedule.clone();
-    target.webhook_enabled = repo.webhook_enabled;
-    target.webhook_secret = repo.webhook_secret.clone();
-    target.findings_count = repo.findings_count;
-    target.created_at = repo.created_at;
-    target.updated_at = repo.updated_at;
-    target
-}
-
-/// Append a DAST target's LiveUrl artifact onto an existing (repo-derived)
-/// target. If the repo default was `BackendService` but the DAST target is a
-/// browser web app, promote the type to `WebApp`.
-pub fn fold_dast_into_target(target: &mut OnboardedTarget, dast: &DastTarget) {
-    if matches!(dast.target_type, DastTargetType::WebApp)
-        && target.target_type == TargetType::BackendService
-    {
-        target.target_type = TargetType::WebApp;
-    }
-    if !target.has(ArtifactKind::LiveUrl) {
-        target.artifacts.push(dast_to_artifact(dast));
-    }
-}
-
-/// Map a repo-less DAST target to a standalone onboarded target, preserving `_id`.
-pub fn dast_to_standalone_target(dast: &DastTarget) -> OnboardedTarget {
-    let mut target =
-        OnboardedTarget::new(dast.name.clone(), target_type_for_dast(&dast.target_type));
-    target.id = dast.id;
-    target.artifacts.push(dast_to_artifact(dast));
-    target.created_at = dast.created_at;
-    target.updated_at = dast.updated_at;
-    target
-}
-
-/// Whether the onboarding backfill has already been applied to this database.
-pub async fn already_applied(db: &Database) -> Result<bool, AgentError> {
-    let found = db
-        .collection_named::<Document>("schema_migrations")
-        .find_one(doc! { "_id": MIGRATION_MARKER })
-        .await?;
-    Ok(found.is_some())
-}
-
-/// Backfill `onboarded_targets` from `repositories` + `dast_targets` for one
-/// tenant database.
-///
-/// Id-preserving and **idempotent**: targets that already exist (by `_id`) are
-/// skipped, so re-running is safe. With `dry_run`, computes the report without
-/// writing. The legacy collections are never deleted; the only mutation outside
-/// `onboarded_targets` is the history relink of folded DAST targets, which is
-/// logged so [`revert`] can undo it.
-pub async fn backfill_onboarded_targets(
-    db: &Database,
-    dry_run: bool,
-) -> Result<MigrationReport, AgentError> {
-    let mut report = MigrationReport::default();
-
-    // 1. repositories -> onboarded_targets (preserve _id, skip existing).
-    let mut repos = db.repositories().find(doc! {}).await?;
-    while let Some(repo) = repos.try_next().await? {
-        let Some(id) = repo.id else { continue };
-        if db
-            .onboarded_targets()
-            .find_one(doc! { "_id": id })
-            .await?
-            .is_some()
-        {
-            report.skipped_existing += 1;
-            continue;
-        }
-        if !dry_run {
-            db.onboarded_targets()
-                .insert_one(repo_to_target(&repo))
-                .await?;
-        }
-        report.repos_migrated += 1;
-    }
-
-    // 2. dast_targets -> fold into the linked repo target, or migrate standalone.
-    let mut dasts = db.dast_targets().find(doc! {}).await?;
-    while let Some(dast) = dasts.try_next().await? {
-        let Some(dast_id) = dast.id else { continue };
-        let repo_oid = dast
-            .repo_id
-            .as_deref()
-            .and_then(|r| mongodb::bson::oid::ObjectId::parse_str(r).ok());
-        let linked = match repo_oid {
-            Some(oid) => db.onboarded_targets().find_one(doc! { "_id": oid }).await?,
-            None => None,
-        };
-
-        match (linked, repo_oid) {
-            // Fold into an existing repo-derived target.
-            (Some(mut target), Some(oid)) => {
-                if target.has(ArtifactKind::LiveUrl) {
-                    report.skipped_existing += 1; // already folded on a prior run
-                    continue;
-                }
-                fold_dast_into_target(&mut target, &dast);
-                if !dry_run {
-                    db.onboarded_targets()
-                        .replace_one(doc! { "_id": oid }, &target)
-                        .await?;
-                    relink_history(db, &dast_id.to_hex(), &oid.to_hex()).await?;
-                }
-                report.dast_targets_folded += 1;
-            }
-            // No linked repo target: migrate as a standalone target (keeps _id).
-            _ => {
-                if db
-                    .onboarded_targets()
-                    .find_one(doc! { "_id": dast_id })
-                    .await?
-                    .is_some()
-                {
-                    report.skipped_existing += 1;
-                    continue;
-                }
-                if !dry_run {
-                    db.onboarded_targets()
-                        .insert_one(dast_to_standalone_target(&dast))
-                        .await?;
-                }
-                report.dast_targets_standalone += 1;
-            }
-        }
-    }
-
-    if !dry_run {
-        db.collection_named::<Document>("schema_migrations")
-            .update_one(
-                doc! { "_id": MIGRATION_MARKER },
-                doc! { "$set": { "applied_at": mongodb::bson::DateTime::now() } },
-            )
-            .upsert(true)
-            .await?;
-    }
-    Ok(report)
-}
-
-/// Relink DAST scan runs and pentest sessions from the old DAST target id to the
-/// unified target id, logging each move so [`revert`] can undo it.
-///
-/// Note: if multiple DAST targets fold into the same repo target, revert
-/// restores only the last-logged mapping — a rare edge. The source collections
-/// (`repositories`, `dast_targets`) are never deleted, so no data is lost.
-async fn relink_history(db: &Database, old_id: &str, new_id: &str) -> Result<(), AgentError> {
-    db.dast_scan_runs()
-        .update_many(
-            doc! { "target_id": old_id },
-            doc! { "$set": { "target_id": new_id } },
-        )
-        .await?;
-    db.pentest_sessions()
-        .update_many(
-            doc! { "target_id": old_id },
-            doc! { "$set": { "target_id": new_id } },
-        )
-        .await?;
-    db.collection_named::<Document>("onboarding_migration_log")
-        .insert_one(doc! { "old_target_id": old_id, "new_target_id": new_id })
-        .await?;
-    Ok(())
-}
-
-/// Undo the backfill: replay the relink log in reverse, drop `onboarded_targets`
-/// and the log, and clear the marker. The legacy collections are untouched, so
-/// this restores the pre-migration state.
-pub async fn revert(db: &Database) -> Result<(), AgentError> {
-    let log = db.collection_named::<Document>("onboarding_migration_log");
-    let mut cursor = log.find(doc! {}).await?;
-    while let Some(entry) = cursor.try_next().await? {
-        if let (Ok(old), Ok(new)) = (
-            entry.get_str("old_target_id"),
-            entry.get_str("new_target_id"),
-        ) {
-            db.dast_scan_runs()
-                .update_many(
-                    doc! { "target_id": new },
-                    doc! { "$set": { "target_id": old } },
-                )
-                .await?;
-            db.pentest_sessions()
-                .update_many(
-                    doc! { "target_id": new },
-                    doc! { "$set": { "target_id": old } },
-                )
-                .await?;
-        }
-    }
-    db.onboarded_targets().drop().await?;
-    log.drop().await?;
-    db.collection_named::<Document>("schema_migrations")
-        .delete_one(doc! { "_id": MIGRATION_MARKER })
-        .await?;
-    Ok(())
-}
-
-#[cfg(test)]
-#[allow(clippy::expect_used, clippy::unwrap_used)]
-mod tests {
-    use super::*;
-    use compliance_core::models::{DastAuthConfig, TrackerType};
-
-    fn repo() -> TrackedRepository {
-        let mut r = TrackedRepository::new("acme".to_string(), "https://git/acme.git".to_string());
-        r.id = Some(mongodb::bson::oid::ObjectId::new());
-        r.default_branch = "develop".to_string();
-        r.last_scanned_commit = Some("abc123".to_string());
-        r.auth_token = Some("pat".to_string());
-        r.auth_username = Some("bob".to_string());
-        r.tracker_type = Some(TrackerType::Gitea);
-        r.tracker_owner = Some("acme".to_string());
-        r.findings_count = 7;
-        r
-    }
-
-    fn dast(repo_id: Option<String>, kind: DastTargetType) -> DastTarget {
-        let mut d = DastTarget::new(
-            "acme-web".to_string(),
-            "https://acme.example.com".to_string(),
-            kind,
-        );
-        d.id = Some(mongodb::bson::oid::ObjectId::new());
-        d.repo_id = repo_id;
-        d.max_crawl_depth = 5;
-        d.auth_config = Some(DastAuthConfig {
-            method: "bearer".to_string(),
-            login_url: None,
-            username: None,
-            password: None,
-            token: Some("tok".to_string()),
-            headers: None,
-        });
-        d
-    }
-
-    #[test]
-    fn repo_maps_preserving_id_and_git_artifact() {
-        let r = repo();
-        let t = repo_to_target(&r);
-        assert_eq!(t.id, r.id); // id preserved
-        assert_eq!(t.findings_count, 7);
-        assert_eq!(t.scan_schedule, r.scan_schedule);
-        let git = t.code_artifact().expect("git artifact");
-        assert_eq!(git.kind, ArtifactKind::GitRepo);
-        assert_eq!(git.source_ref, "https://git/acme.git");
-        let gc = git.git.as_ref().expect("git config");
-        assert_eq!(gc.default_branch, "develop");
-        assert_eq!(gc.last_scanned_commit.as_deref(), Some("abc123"));
-        let auth = git.auth.as_ref().expect("auth");
-        assert_eq!(auth.secret.as_deref(), Some("pat"));
-        assert_eq!(auth.username.as_deref(), Some("bob"));
-        assert_eq!(
-            t.scan_config
-                .issue_tracker
-                .as_ref()
-                .and_then(|it| it.tracker_type.clone()),
-            Some(TrackerType::Gitea)
-        );
-    }
-
-    #[test]
-    fn standalone_dast_maps_preserving_id_and_live_url() {
-        let d = dast(None, DastTargetType::WebApp);
-        let t = dast_to_standalone_target(&d);
-        assert_eq!(t.id, d.id);
-        assert_eq!(t.target_type, TargetType::WebApp);
-        let url = t.live_url().expect("live url");
-        assert_eq!(url.source_ref, "https://acme.example.com");
-        let web = url.web.as_ref().expect("web config");
-        assert_eq!(web.max_crawl_depth, 5);
-        assert_eq!(
-            url.auth.as_ref().and_then(|a| a.secret.clone()),
-            Some("tok".to_string())
-        );
-    }
-
-    #[test]
-    fn rest_api_dast_maps_to_backend_service() {
-        let d = dast(None, DastTargetType::RestApi);
-        assert_eq!(
-            dast_to_standalone_target(&d).target_type,
-            TargetType::BackendService
-        );
-    }
-
-    #[test]
-    fn fold_adds_live_url_and_promotes_webapp() {
-        let mut t = repo_to_target(&repo());
-        assert_eq!(t.target_type, TargetType::BackendService);
-        fold_dast_into_target(&mut t, &dast(Some("x".to_string()), DastTargetType::WebApp));
-        assert_eq!(t.target_type, TargetType::WebApp); // promoted
-        assert!(t.has(ArtifactKind::LiveUrl));
-        assert!(t.has(ArtifactKind::GitRepo));
-    }
-
-    #[test]
-    fn fold_is_idempotent_on_live_url() {
-        let mut t = repo_to_target(&repo());
-        let d = dast(Some("x".to_string()), DastTargetType::WebApp);
-        fold_dast_into_target(&mut t, &d);
-        fold_dast_into_target(&mut t, &d);
-        let live_urls = t
-            .artifacts
-            .iter()
-            .filter(|a| a.kind == ArtifactKind::LiveUrl)
-            .count();
-        assert_eq!(live_urls, 1);
-    }
-}

compliance-agent/src/pentest/cleanup.rs

@@ -342,7 +342,6 @@ mod tests {
             pentest_imap_password: None,
             admin_api_token: None,
             tenant_registry_url: None,
-            unified_pipeline: false,
         }
     }
 

compliance-agent/src/pipeline/cve.rs

@@ -204,6 +204,202 @@ impl CveScanner {
 
         Ok(results)
     }
+
+    /// Match the CODESYS **runtime** component against NVD by CPE.
+    ///
+    /// CODESYS advisories (the CoDe16 cluster and friends) are indexed in NVD by
+    /// CPE (`cpe:2.3:a:codesys:control*`) keyed off the *runtime* version — not by
+    /// the internal `Cmp*`/`Sys*` library names OSV-by-purl would look up. So we
+    /// find the runtime SBOM entry, pull every `cpe:2.3:a:codesys:*` CVE from NVD,
+    /// and keep the ones whose affected-version range covers our runtime version.
+    /// Best-effort: returns empty without an NVD key, on a network error, or when
+    /// no CODESYS runtime component is present.
+    pub async fn scan_codesys(&self, repo_id: &str, entries: &mut [SbomEntry]) -> Vec<CveAlert> {
+        let Some((name, version)) = codesys_runtime(entries) else {
+            return Vec::new();
+        };
+        let url = "https://services.nvd.nist.gov/rest/json/cves/2.0\
+                   ?virtualMatchString=cpe:2.3:a:codesys";
+        let mut req = self.http.get(url);
+        if let Some(key) = &self.nvd_api_key {
+            req = req.header("apiKey", key.as_str());
+        }
+        let body: serde_json::Value = match req.send().await {
+            Ok(r) if r.status().is_success() => match r.json().await {
+                Ok(b) => b,
+                Err(e) => {
+                    tracing::warn!("CODESYS NVD parse failed: {e}");
+                    return Vec::new();
+                }
+            },
+            Ok(r) => {
+                tracing::warn!("CODESYS NVD returned {}", r.status());
+                return Vec::new();
+            }
+            Err(e) => {
+                tracing::warn!("CODESYS NVD request failed: {e}");
+                return Vec::new();
+            }
+        };
+
+        let matched = parse_codesys_nvd(&body, &version);
+        let mut alerts = Vec::new();
+        for cve in matched {
+            if let Some(e) = entries
+                .iter_mut()
+                .find(|e| e.name == name && e.version == version)
+            {
+                e.known_vulnerabilities.push(VulnRef {
+                    id: cve.id.clone(),
+                    source: "nvd".to_string(),
+                    severity: None,
+                    url: Some(format!("https://nvd.nist.gov/vuln/detail/{}", cve.id)),
+                });
+            }
+            let mut alert = CveAlert::new(
+                cve.id,
+                repo_id.to_string(),
+                name.clone(),
+                version.clone(),
+                CveSource::Nvd,
+            );
+            alert.summary = cve.summary;
+            alert.cvss_score = cve.cvss;
+            alerts.push(alert);
+        }
+        tracing::info!(runtime = %name, version = %version, cves = alerts.len(), "CODESYS CVE match");
+        alerts
+    }
+}
+
+/// The CODESYS runtime component (name + version) from an SBOM, if present. The
+/// runtime carries the version CODESYS advisories key off; the internal library
+/// components do not.
+fn codesys_runtime(entries: &[SbomEntry]) -> Option<(String, String)> {
+    entries
+        .iter()
+        .find(|e| e.package_manager == "codesys" && e.name.starts_with("CODESYS Control"))
+        .map(|e| (e.name.clone(), e.version.clone()))
+}
+
+/// A parsed NVD CVE that affects the CODESYS runtime.
+struct CodesysCve {
+    id: String,
+    summary: Option<String>,
+    cvss: Option<f64>,
+}
+
+/// Version constraints from an NVD `cpeMatch` node.
+#[derive(Default)]
+struct CpeRange {
+    exact: Option<String>,
+    start_incl: Option<String>,
+    start_excl: Option<String>,
+    end_incl: Option<String>,
+    end_excl: Option<String>,
+}
+
+/// Parse an NVD CVE-list response and keep the CVEs whose CODESYS CPE match covers
+/// `runtime_version`.
+fn parse_codesys_nvd(body: &serde_json::Value, runtime_version: &str) -> Vec<CodesysCve> {
+    let mut out = Vec::new();
+    let Some(vulns) = body["vulnerabilities"].as_array() else {
+        return out;
+    };
+    for v in vulns {
+        let cve = &v["cve"];
+        let Some(id) = cve["id"].as_str() else {
+            continue;
+        };
+        let covered = cve["configurations"]
+            .as_array()
+            .into_iter()
+            .flatten()
+            .flat_map(|c| c["nodes"].as_array().into_iter().flatten())
+            .flat_map(|n| n["cpeMatch"].as_array().into_iter().flatten())
+            .any(|cm| {
+                cm["vulnerable"].as_bool() == Some(true)
+                    && cm["criteria"]
+                        .as_str()
+                        .is_some_and(|c| c.contains(":codesys:"))
+                    && version_matches(runtime_version, &cpe_range(cm))
+            });
+        if covered {
+            let summary = cve["descriptions"]
+                .as_array()
+                .and_then(|d| d.iter().find(|x| x["lang"].as_str() == Some("en")))
+                .and_then(|x| x["value"].as_str())
+                .map(String::from);
+            let cvss = cve["metrics"]["cvssMetricV31"]
+                .as_array()
+                .and_then(|m| m.first())
+                .and_then(|m| m["cvssData"]["baseScore"].as_f64());
+            out.push(CodesysCve {
+                id: id.to_string(),
+                summary,
+                cvss,
+            });
+        }
+    }
+    out
+}
+
+/// Build a [`CpeRange`] from an NVD `cpeMatch` object.
+fn cpe_range(cm: &serde_json::Value) -> CpeRange {
+    let exact = cm["criteria"]
+        .as_str()
+        .and_then(cpe_version)
+        .filter(|v| v != "*" && v != "-" && !v.is_empty());
+    CpeRange {
+        exact,
+        start_incl: cm["versionStartIncluding"].as_str().map(String::from),
+        start_excl: cm["versionStartExcluding"].as_str().map(String::from),
+        end_incl: cm["versionEndIncluding"].as_str().map(String::from),
+        end_excl: cm["versionEndExcluding"].as_str().map(String::from),
+    }
+}
+
+/// The version field (6th component) of a CPE 2.3 string.
+fn cpe_version(criteria: &str) -> Option<String> {
+    criteria.split(':').nth(5).map(String::from)
+}
+
+/// Whether `v` satisfies a CPE version range.
+fn version_matches(v: &str, r: &CpeRange) -> bool {
+    use std::cmp::Ordering::{Equal, Greater, Less};
+    if let Some(exact) = &r.exact {
+        return cmp_dotted(v, exact) == Equal;
+    }
+    let mut ok = true;
+    if let Some(s) = &r.start_incl {
+        ok &= cmp_dotted(v, s) != Less;
+    }
+    if let Some(s) = &r.start_excl {
+        ok &= cmp_dotted(v, s) == Greater;
+    }
+    if let Some(e) = &r.end_incl {
+        ok &= cmp_dotted(v, e) != Greater;
+    }
+    if let Some(e) = &r.end_excl {
+        ok &= cmp_dotted(v, e) == Less;
+    }
+    ok
+}
+
+/// Compare two dotted numeric versions (`4.17.0.0` vs `4.9.0.0`); missing
+/// components count as 0, non-numeric components as 0.
+fn cmp_dotted(a: &str, b: &str) -> std::cmp::Ordering {
+    let pa: Vec<u64> = a.split('.').map(|x| x.parse().unwrap_or(0)).collect();
+    let pb: Vec<u64> = b.split('.').map(|x| x.parse().unwrap_or(0)).collect();
+    for i in 0..pa.len().max(pb.len()) {
+        let x = pa.get(i).copied().unwrap_or(0);
+        let y = pb.get(i).copied().unwrap_or(0);
+        match x.cmp(&y) {
+            std::cmp::Ordering::Equal => continue,
+            other => return other,
+        }
+    }
+    std::cmp::Ordering::Equal
 }
 
 #[derive(serde::Deserialize)]
@@ -228,3 +424,90 @@ struct OsvVuln {
     summary: Option<String>,
     severity: Option<String>,
 }
+
+#[cfg(test)]
+mod tests {
+    use super::*;
+    use std::cmp::Ordering::{Equal, Greater, Less};
+
+    fn entry(name: &str, ver: &str, pm: &str) -> SbomEntry {
+        SbomEntry::new("t".into(), name.into(), ver.into(), pm.into())
+    }
+
+    #[test]
+    fn finds_the_codesys_runtime_component() {
+        let entries = vec![
+            entry("Standard", "3.5.18.0", "codesys"),
+            entry("CODESYS Control for Linux ARM SL", "4.17.0.0", "codesys"),
+        ];
+        assert_eq!(
+            codesys_runtime(&entries),
+            Some(("CODESYS Control for Linux ARM SL".into(), "4.17.0.0".into()))
+        );
+        // Internal library components are not the runtime.
+        assert!(codesys_runtime(&[entry("Util", "3.5.21.0", "codesys")]).is_none());
+    }
+
+    #[test]
+    fn dotted_version_comparison() {
+        assert_eq!(cmp_dotted("4.17.0.0", "4.9.0.0"), Greater);
+        assert_eq!(cmp_dotted("4.9.0.0", "4.17.0.0"), Less);
+        assert_eq!(cmp_dotted("3.5.18.0", "3.5.18.0"), Equal);
+        assert_eq!(cmp_dotted("4.2", "4.2.0.0"), Equal); // missing components = 0
+    }
+
+    #[test]
+    fn version_range_matching() {
+        let end_excl = CpeRange {
+            end_excl: Some("4.9.0.0".into()),
+            ..Default::default()
+        };
+        assert!(!version_matches("4.17.0.0", &end_excl)); // patched
+        assert!(version_matches("4.5.0.0", &end_excl)); // affected
+
+        let exact = CpeRange {
+            exact: Some("3.5.16.0".into()),
+            ..Default::default()
+        };
+        assert!(version_matches("3.5.16.0", &exact));
+        assert!(!version_matches("3.5.17.0", &exact));
+
+        let span = CpeRange {
+            start_incl: Some("3.0.0.0".into()),
+            end_incl: Some("3.5.16.0".into()),
+            ..Default::default()
+        };
+        assert!(version_matches("3.5.16.0", &span));
+        assert!(!version_matches("3.5.17.0", &span));
+    }
+
+    #[test]
+    fn parses_nvd_and_matches_by_runtime_version() {
+        // Two CODESYS CVEs: one affects < 4.9 (our 4.17 is patched), one affects
+        // <= 4.20 (our 4.17 is affected). Only the latter should match.
+        let body = serde_json::json!({
+          "vulnerabilities": [
+            {"cve": {"id":"CVE-2023-0001",
+              "descriptions":[{"lang":"en","value":"old CmpBlkDrvTcp bug"}],
+              "metrics":{"cvssMetricV31":[{"cvssData":{"baseScore":7.5}}]},
+              "configurations":[{"nodes":[{"cpeMatch":[
+                {"vulnerable":true,
+                 "criteria":"cpe:2.3:a:codesys:control_for_linux_sl:*:*:*:*:*:*:*:*",
+                 "versionEndExcluding":"4.9.0.0"}
+              ]}]}]}},
+            {"cve": {"id":"CVE-2024-0002",
+              "descriptions":[{"lang":"en","value":"recent runtime bug"}],
+              "metrics":{"cvssMetricV31":[{"cvssData":{"baseScore":9.8}}]},
+              "configurations":[{"nodes":[{"cpeMatch":[
+                {"vulnerable":true,
+                 "criteria":"cpe:2.3:a:codesys:control_for_linux_sl:*:*:*:*:*:*:*:*",
+                 "versionEndIncluding":"4.20.0.0"}
+              ]}]}]}}
+          ]
+        });
+        let matched = parse_codesys_nvd(&body, "4.17.0.0");
+        let ids: Vec<&str> = matched.iter().map(|c| c.id.as_str()).collect();
+        assert_eq!(ids, vec!["CVE-2024-0002"]);
+        assert_eq!(matched[0].cvss, Some(9.8));
+    }
+}

compliance-agent/src/pipeline/git.rs

@@ -80,7 +80,10 @@ impl GitOps {
 
     #[tracing::instrument(skip_all, fields(repo_name = %repo_name))]
     pub fn clone_or_fetch(&self, git_url: &str, repo_name: &str) -> Result<PathBuf, AgentError> {
-        let repo_path = self.base_path.join(repo_name);
+        // Names can contain slashes or other path-hostile characters (a target
+        // named after a repo path, say); collapse to one safe directory segment
+        // so the clone path never nests or breaks.
+        let repo_path = self.base_path.join(sanitize_repo_dir(repo_name));
 
         if repo_path.exists() {
             tracing::info!("fetching updates for existing repo");
@@ -135,7 +138,7 @@ impl GitOps {
     /// Build credentials from agent config + per-repo overrides
     pub fn make_repo_credentials(
         config: &compliance_core::AgentConfig,
-        repo: &compliance_core::models::TrackedRepository,
+        repo: &crate::pipeline::repo_view::RepoView,
     ) -> RepoCredentials {
         RepoCredentials {
             ssh_key_path: Some(config.ssh_key_path.clone()),
@@ -253,3 +256,46 @@ pub struct DiffFile {
     pub path: String,
     pub hunks: String,
 }
+
+/// Collapse a repository name into a single filesystem-safe directory segment.
+/// Names may carry slashes or other path-hostile characters (a target named
+/// after a repo path, for instance); those would otherwise nest or break the
+/// clone path, so map anything outside `[A-Za-z0-9._-]` to `_`.
+fn sanitize_repo_dir(name: &str) -> String {
+    let mapped: String = name
+        .chars()
+        .map(|c| {
+            if c.is_ascii_alphanumeric() || c == '-' || c == '_' || c == '.' {
+                c
+            } else {
+                '_'
+            }
+        })
+        .collect();
+    let trimmed = mapped.trim_matches(|c| c == '.' || c == '_');
+    if trimmed.is_empty() {
+        "repo".to_string()
+    } else {
+        trimmed.to_string()
+    }
+}
+
+#[cfg(test)]
+mod tests {
+    use super::sanitize_repo_dir;
+
+    #[test]
+    fn sanitizes_path_hostile_names() {
+        assert_eq!(
+            sanitize_repo_dir("zephyr-example-app"),
+            "zephyr-example-app"
+        );
+        assert_eq!(
+            sanitize_repo_dir("ChristianRinn/bare_metal_stm32f411xe"),
+            "ChristianRinn_bare_metal_stm32f411xe"
+        );
+        assert_eq!(sanitize_repo_dir("../../etc/passwd"), "etc_passwd");
+        assert_eq!(sanitize_repo_dir("a b:c"), "a_b_c");
+        assert_eq!(sanitize_repo_dir("///"), "repo");
+    }
+}

compliance-agent/src/pipeline/ics/ethernetip.rs

@@ -0,0 +1,95 @@
+//! Minimal EtherNet/IP (CIP) reachability probe.
+//!
+//! Sends an EtherNet/IP encapsulation **ListIdentity** command (0x0063) over TCP
+//! 44818 and checks for a valid encapsulation reply — confirming a CIP device
+//! without opening a session or writing anything.
+
+use std::time::Duration;
+
+use tokio::io::{AsyncReadExt, AsyncWriteExt};
+use tokio::net::TcpStream;
+use tokio::time::timeout;
+
+/// Outcome of an EtherNet/IP handshake probe.
+#[derive(Debug, Default, PartialEq, Eq)]
+pub struct EnipProbe {
+    /// A TCP connection to the port was established.
+    pub reachable: bool,
+    /// The endpoint returned a valid EtherNet/IP encapsulation reply.
+    pub is_enip: bool,
+}
+
+/// Probe an EtherNet/IP endpoint with a ListIdentity request. Read-only.
+pub async fn probe(host: &str, port: u16, budget: Duration) -> EnipProbe {
+    let mut out = EnipProbe::default();
+    let Ok(Ok(mut stream)) = timeout(budget, TcpStream::connect((host, port))).await else {
+        return out;
+    };
+    out.reachable = true;
+
+    // Encapsulation header (24 bytes): command(2) length(2) session(4) status(4)
+    // context(8) options(4). ListIdentity = command 0x0063, everything else zero.
+    let mut req = vec![0u8; 24];
+    req[0..2].copy_from_slice(&0x0063u16.to_le_bytes());
+    if timeout(budget, stream.write_all(&req))
+        .await
+        .ok()
+        .and_then(Result::ok)
+        .is_none()
+    {
+        return out;
+    }
+
+    let mut hdr = [0u8; 24];
+    if timeout(budget, stream.read_exact(&mut hdr))
+        .await
+        .ok()
+        .and_then(Result::ok)
+        .is_none()
+    {
+        return out;
+    }
+    let command = u16::from_le_bytes([hdr[0], hdr[1]]);
+    let status = u32::from_le_bytes([hdr[8], hdr[9], hdr[10], hdr[11]]);
+    // Echoed command + success status = a valid EtherNet/IP encapsulation reply.
+    if command == 0x0063 && status == 0 {
+        out.is_enip = true;
+    }
+    out
+}
+
+#[cfg(test)]
+mod tests {
+    use super::*;
+    use tokio::net::TcpListener;
+
+    async fn mock_server() -> std::net::SocketAddr {
+        let listener = TcpListener::bind("127.0.0.1:0").await.expect("bind");
+        let addr = listener.local_addr().expect("addr");
+        tokio::spawn(async move {
+            let (mut sock, _) = listener.accept().await.expect("accept");
+            let mut req = [0u8; 24];
+            if sock.read_exact(&mut req).await.is_err() {
+                return;
+            }
+            // Reply: echo command 0x0063, status 0, no data.
+            let mut hdr = vec![0u8; 24];
+            hdr[0..2].copy_from_slice(&0x0063u16.to_le_bytes());
+            let _ = sock.write_all(&hdr).await;
+        });
+        addr
+    }
+
+    #[tokio::test]
+    async fn probe_detects_an_ethernetip_device() {
+        let addr = mock_server().await;
+        let p = probe(&addr.ip().to_string(), addr.port(), Duration::from_secs(2)).await;
+        assert!(p.reachable && p.is_enip);
+    }
+
+    #[tokio::test]
+    async fn probe_reports_unreachable_for_a_closed_port() {
+        let p = probe("127.0.0.1", 1, Duration::from_millis(500)).await;
+        assert!(!p.reachable && !p.is_enip);
+    }
+}

compliance-agent/src/pipeline/ics/mod.rs

@@ -0,0 +1,273 @@
+//! Dynamic ICS (industrial control system) probing for PLC/SPS targets.
+//!
+//! Where the control-logic scanner is static (over ST / PLCopen XML), this probes
+//! the *running* device over industrial protocols and reports exposed /
+//! unauthenticated control interfaces. It is read-only: it never writes to a live
+//! process. Modbus/TCP and OPC UA are implemented; EtherNet-IP is a follow-on.
+
+pub mod ethernetip;
+pub mod modbus;
+pub mod opcua;
+pub mod portscan;
+
+use std::time::Duration;
+
+use compliance_core::models::{Finding, ScanType, Severity};
+
+use crate::pipeline::dedup;
+
+/// Well-known deep-probe ports (each independent of any WebVisu HTTP port).
+const MODBUS_PORT: u16 = 502;
+const OPCUA_PORT: u16 = 4840;
+const ENIP_PORT: u16 = 44818;
+
+/// Probe a PLC/SPS device's industrial-protocol surface and return findings.
+/// Read-only. Deep-probes Modbus/TCP, OPC UA and EtherNet/IP, plus a service
+/// discovery scan of the remaining OT / insecure-management ports. `endpoint` is
+/// the target's live-URL / host reference.
+pub async fn probe_target(endpoint: &str, repo_id: &str, budget: Duration) -> Vec<Finding> {
+    let (host, modbus_port) = parse_endpoint(endpoint);
+    let mut findings = modbus_findings(&host, modbus_port, repo_id, budget).await;
+    findings.extend(opcua_findings(&host, OPCUA_PORT, repo_id, budget).await);
+    findings.extend(enip_findings(&host, ENIP_PORT, repo_id, budget).await);
+    findings.extend(portscan_findings(&host, repo_id, budget).await);
+    findings
+}
+
+/// Findings from probing the Modbus/TCP surface.
+async fn modbus_findings(host: &str, port: u16, repo_id: &str, budget: Duration) -> Vec<Finding> {
+    let probe = modbus::probe(host, port, budget).await;
+    let mut findings = Vec::new();
+    if !probe.speaks_modbus {
+        // Not reachable, or the port does not speak Modbus — nothing to report.
+        return findings;
+    }
+    let target = format!("{host}:{port}");
+
+    // Reachable Modbus/TCP = unauthenticated, cleartext control access by design.
+    let fp = dedup::compute_fingerprint(&[repo_id, "ics-modbus-exposed", &target]);
+    let mut f = Finding::new(
+        repo_id.to_string(),
+        fp,
+        "ics-probe".to_string(),
+        ScanType::IcsProbe,
+        "Modbus/TCP control interface exposed without authentication".to_string(),
+        format!(
+            "The device at {target} answers Modbus/TCP requests. Modbus/TCP has no \
+             authentication or encryption in the protocol, so any host that can reach this \
+             port can read and write process variables (coils/registers) and disrupt the \
+             controlled process."
+        ),
+        Severity::Critical,
+    );
+    f.rule_id = Some("ics-modbus-exposed".to_string());
+    f.cwe = Some("CWE-306".to_string());
+    f.remediation = Some(
+        "Restrict the Modbus/TCP port to a trusted control network (segmentation / \
+         firewall / VPN), never expose it to IT or the internet, and prefer an authenticated \
+         transport (e.g. Modbus/TLS) or a secure protocol gateway where available."
+            .to_string(),
+    );
+    findings.push(f);
+
+    if let Some(dev) = &probe.device {
+        let details = [
+            dev.vendor.as_deref(),
+            dev.product.as_deref(),
+            dev.revision.as_deref(),
+        ]
+        .into_iter()
+        .flatten()
+        .collect::<Vec<_>>()
+        .join(" / ");
+        let fp = dedup::compute_fingerprint(&[repo_id, "ics-device-disclosure", &target]);
+        let mut f = Finding::new(
+            repo_id.to_string(),
+            fp,
+            "ics-probe".to_string(),
+            ScanType::IcsProbe,
+            "PLC device identity disclosed over Modbus".to_string(),
+            format!(
+                "The device at {target} discloses its identity via Modbus Read Device \
+                 Identification: {details}. This aids fingerprinting and targeting of \
+                 known-vulnerable firmware/runtime versions."
+            ),
+            Severity::Low,
+        );
+        f.rule_id = Some("ics-device-disclosure".to_string());
+        f.cwe = Some("CWE-200".to_string());
+        f.remediation = Some(
+            "Limit network reach to the device; Modbus device identification cannot be \
+             disabled, so exposure is bounded by network segmentation."
+                .to_string(),
+        );
+        findings.push(f);
+    }
+    findings
+}
+
+/// Findings from probing the OPC UA surface (default port 4840). A reachability
+/// probe only: it flags an exposed OPC UA server for review of its security
+/// policy / authentication (deep SecurityPolicy analysis is a follow-on).
+async fn opcua_findings(host: &str, port: u16, repo_id: &str, budget: Duration) -> Vec<Finding> {
+    let probe = opcua::probe(host, port, budget).await;
+    let mut findings = Vec::new();
+    if !probe.is_opcua {
+        return findings;
+    }
+    let target = format!("{host}:{port}");
+    let fp = dedup::compute_fingerprint(&[repo_id, "ics-opcua-exposed", &target]);
+    let mut f = Finding::new(
+        repo_id.to_string(),
+        fp,
+        "ics-probe".to_string(),
+        ScanType::IcsProbe,
+        "OPC UA server exposed on the network".to_string(),
+        format!(
+            "An OPC UA server answers at {target}. Verify it enforces message security \
+             (a SecurityPolicy other than None) and rejects anonymous sessions — the common \
+             default of SecurityPolicy None + an Anonymous user token allows unauthenticated, \
+             unencrypted read/write of the server's address space."
+        ),
+        Severity::Medium,
+    );
+    f.rule_id = Some("ics-opcua-exposed".to_string());
+    f.cwe = Some("CWE-319".to_string());
+    f.remediation = Some(
+        "Restrict OPC UA (4840) to a trusted network; require a signed & encrypted \
+         SecurityPolicy (Basic256Sha256 or better) with certificate / username \
+         authentication, and disable the Anonymous user token."
+            .to_string(),
+    );
+    findings.push(f);
+    findings
+}
+
+/// Findings from probing the EtherNet/IP (CIP) surface (default port 44818).
+async fn enip_findings(host: &str, port: u16, repo_id: &str, budget: Duration) -> Vec<Finding> {
+    let probe = ethernetip::probe(host, port, budget).await;
+    if !probe.is_enip {
+        return Vec::new();
+    }
+    let target = format!("{host}:{port}");
+    let fp = dedup::compute_fingerprint(&[repo_id, "ics-ethernetip-exposed", &target]);
+    let mut f = Finding::new(
+        repo_id.to_string(),
+        fp,
+        "ics-probe".to_string(),
+        ScanType::IcsProbe,
+        "EtherNet/IP (CIP) interface exposed on the network".to_string(),
+        format!(
+            "The device at {target} answers EtherNet/IP (CIP) requests. EtherNet/IP has no \
+             authentication in the base protocol, so a host that can reach it can enumerate \
+             and interact with the device's control objects."
+        ),
+        Severity::High,
+    );
+    f.rule_id = Some("ics-ethernetip-exposed".to_string());
+    f.cwe = Some("CWE-306".to_string());
+    f.remediation = Some(
+        "Restrict EtherNet/IP (44818/2222) to a trusted control network; use CIP Security \
+         (encryption + authentication) on devices that support it."
+            .to_string(),
+    );
+    vec![f]
+}
+
+/// Findings from the service-discovery port scan of the remaining OT /
+/// insecure-management surface.
+async fn portscan_findings(host: &str, repo_id: &str, budget: Duration) -> Vec<Finding> {
+    let open = portscan::scan(host, portscan::KNOWN_PORTS, budget).await;
+    open.into_iter()
+        .map(|kp| {
+            let target = format!("{host}:{}", kp.port);
+            let (title, severity, cwe, description) = match kp.kind {
+                portscan::PortKind::Ics => (
+                    format!("ICS service exposed: {}", kp.service),
+                    Severity::High,
+                    "CWE-306",
+                    format!(
+                        "{target} exposes {} ({}). Industrial protocols are typically \
+                         unauthenticated, so network reach implies control access.",
+                        kp.service, kp.note
+                    ),
+                ),
+                portscan::PortKind::InsecureMgmt => (
+                    format!("Cleartext service exposed: {}", kp.service),
+                    Severity::Medium,
+                    "CWE-319",
+                    format!(
+                        "{target} exposes {} ({}), which transmits credentials and data in \
+                         cleartext.",
+                        kp.service, kp.note
+                    ),
+                ),
+            };
+            let fp = dedup::compute_fingerprint(&[repo_id, "ics-service-exposed", &target]);
+            let mut f = Finding::new(
+                repo_id.to_string(),
+                fp,
+                "ics-probe".to_string(),
+                ScanType::IcsProbe,
+                title,
+                description,
+                severity,
+            );
+            f.rule_id = Some("ics-service-exposed".to_string());
+            f.cwe = Some(cwe.to_string());
+            f.remediation = Some(
+                "Restrict the service to a trusted network segment; disable it if unused; \
+                 replace cleartext protocols (Telnet/FTP) with SSH/SFTP."
+                    .to_string(),
+            );
+            f
+        })
+        .collect()
+}
+
+/// Extract `(host, port)` from a target reference. Modbus lives on its own port
+/// (502 by default), independent of any HTTP/WebVisu URL, so unless the reference
+/// explicitly carries `modbus://host:port` or a bare `host:port`, we probe 502.
+fn parse_endpoint(endpoint: &str) -> (String, u16) {
+    let s = endpoint.trim();
+    let (scheme, rest) = match s.split_once("://") {
+        Some((sch, r)) => (Some(sch.to_ascii_lowercase()), r),
+        None => (None, s),
+    };
+    let hostport = rest.split(['/', '?']).next().unwrap_or(rest);
+    let (host, port) = match hostport.rsplit_once(':') {
+        Some((h, p)) => (h.to_string(), p.parse::<u16>().ok()),
+        None => (hostport.to_string(), None),
+    };
+    let port = match (scheme.as_deref(), port) {
+        // Explicit Modbus port, or a bare host:port the user chose.
+        (Some("modbus"), Some(p)) | (None, Some(p)) => p,
+        // An http(s)/WebVisu URL (or no port): Modbus is on its own port.
+        _ => MODBUS_PORT,
+    };
+    (host, port)
+}
+
+#[cfg(test)]
+mod tests {
+    use super::parse_endpoint;
+
+    #[test]
+    fn endpoint_parsing_picks_the_modbus_port() {
+        assert_eq!(parse_endpoint("10.0.0.5"), ("10.0.0.5".into(), 502));
+        assert_eq!(parse_endpoint("10.0.0.5:1502"), ("10.0.0.5".into(), 1502));
+        assert_eq!(
+            parse_endpoint("modbus://plc.local:5020"),
+            ("plc.local".into(), 5020)
+        );
+        // A WebVisu URL: the http port is ignored; Modbus is on 502.
+        assert_eq!(
+            parse_endpoint("http://plc.local:8080/webvisu"),
+            ("plc.local".into(), 502)
+        );
+        assert_eq!(
+            parse_endpoint("https://plc.local/"),
+            ("plc.local".into(), 502)
+        );
+    }
+}

compliance-agent/src/pipeline/ics/modbus.rs

@@ -0,0 +1,205 @@
+//! Minimal Modbus/TCP client for dynamic ICS probing.
+//!
+//! Modbus/TCP (port 502) has no authentication or encryption in the protocol, so
+//! an endpoint that answers requests is, by design, open to any host that can
+//! reach it. The probe only *reads* — a Read Holding Registers request and a Read
+//! Device Identification request — and never writes to the live process.
+
+use std::time::Duration;
+
+use tokio::io::{AsyncReadExt, AsyncWriteExt};
+use tokio::net::TcpStream;
+use tokio::time::timeout;
+
+/// Outcome of probing a Modbus/TCP endpoint.
+#[derive(Debug, Default, PartialEq, Eq)]
+pub struct ModbusProbe {
+    /// A TCP connection to the port was established.
+    pub reachable: bool,
+    /// The endpoint answered a Modbus request (a normal reply or a Modbus
+    /// exception) — i.e. it speaks Modbus, unauthenticated.
+    pub speaks_modbus: bool,
+    /// Device identity, if disclosed via Read Device Identification (FC 43 / 14).
+    pub device: Option<DeviceId>,
+}
+
+/// Vendor / product / revision from Read Device Identification.
+#[derive(Debug, Default, PartialEq, Eq)]
+pub struct DeviceId {
+    pub vendor: Option<String>,
+    pub product: Option<String>,
+    pub revision: Option<String>,
+}
+
+/// Probe a Modbus/TCP endpoint. Read-only: issues a Read Holding Registers and a
+/// Read Device Identification request; never writes to the device.
+pub async fn probe(host: &str, port: u16, budget: Duration) -> ModbusProbe {
+    let mut out = ModbusProbe::default();
+    let Ok(Ok(mut stream)) = timeout(budget, TcpStream::connect((host, port))).await else {
+        return out; // unreachable
+    };
+    out.reachable = true;
+
+    // Read Holding Registers (FC 0x03), unit 1, addr 0, qty 1 — a benign read.
+    let rhr = [0x03u8, 0x00, 0x00, 0x00, 0x01];
+    if let Some(resp) = txn(&mut stream, 1, &rhr, budget).await {
+        // A normal reply (0x03) or an exception (0x83) both prove it speaks Modbus.
+        if matches!(resp.first(), Some(0x03) | Some(0x83)) {
+            out.speaks_modbus = true;
+        }
+    }
+
+    // Read Device Identification (FC 0x2B / MEI 0x0E), basic (0x01), object 0.
+    let rdi = [0x2Bu8, 0x0E, 0x01, 0x00];
+    if let Some(resp) = txn(&mut stream, 1, &rdi, budget).await {
+        if resp.first() == Some(&0x2B) {
+            out.speaks_modbus = true;
+            out.device = parse_device_id(&resp);
+        }
+    }
+    out
+}
+
+/// Send one Modbus PDU and return the response PDU (function code + data), or
+/// `None` on timeout / malformed reply.
+async fn txn(stream: &mut TcpStream, unit: u8, pdu: &[u8], budget: Duration) -> Option<Vec<u8>> {
+    // MBAP header: transaction id (2) + protocol id (2) = 0 + length (2) + unit (1),
+    // then the PDU. `length` counts the unit byte plus the PDU.
+    let len = (pdu.len() + 1) as u16;
+    let mut frame = Vec::with_capacity(7 + pdu.len());
+    frame.extend_from_slice(&[0x00, 0x01]); // transaction id
+    frame.extend_from_slice(&[0x00, 0x00]); // protocol id
+    frame.extend_from_slice(&len.to_be_bytes());
+    frame.push(unit);
+    frame.extend_from_slice(pdu);
+    timeout(budget, stream.write_all(&frame)).await.ok()?.ok()?;
+
+    let mut hdr = [0u8; 7];
+    timeout(budget, stream.read_exact(&mut hdr))
+        .await
+        .ok()?
+        .ok()?;
+    // Reject non-Modbus replies (protocol id must be 0).
+    if hdr[2] != 0 || hdr[3] != 0 {
+        return None;
+    }
+    let plen = u16::from_be_bytes([hdr[4], hdr[5]]) as usize;
+    if !(2..=260).contains(&plen) {
+        return None;
+    }
+    let mut body = vec![0u8; plen - 1]; // minus the unit id already in hdr[6]
+    timeout(budget, stream.read_exact(&mut body))
+        .await
+        .ok()?
+        .ok()?;
+    Some(body)
+}
+
+/// Parse vendor / product / revision from a Read Device Identification PDU:
+/// `[0x2B, 0x0E, readDevIdCode, conformity, moreFollows, nextObjId, numObjects,
+/// (objId, len, bytes…)…]`.
+fn parse_device_id(pdu: &[u8]) -> Option<DeviceId> {
+    if pdu.len() < 7 {
+        return None;
+    }
+    let num = pdu[6] as usize;
+    let mut i = 7;
+    let mut dev = DeviceId::default();
+    for _ in 0..num {
+        if i + 2 > pdu.len() {
+            break;
+        }
+        let id = pdu[i];
+        let l = pdu[i + 1] as usize;
+        i += 2;
+        if i + l > pdu.len() {
+            break;
+        }
+        let val = String::from_utf8_lossy(&pdu[i..i + l]).trim().to_string();
+        i += l;
+        match id {
+            0x00 => dev.vendor = Some(val),
+            0x01 => dev.product = Some(val),
+            0x02 => dev.revision = Some(val),
+            _ => {}
+        }
+    }
+    if dev == DeviceId::default() {
+        None
+    } else {
+        Some(dev)
+    }
+}
+
+#[cfg(test)]
+mod tests {
+    use super::*;
+    use tokio::net::TcpListener;
+
+    /// A one-shot mock Modbus/TCP server that answers a Read Holding Registers
+    /// request and a Read Device Identification request on one connection.
+    async fn mock_server(with_device: bool) -> std::net::SocketAddr {
+        let listener = TcpListener::bind("127.0.0.1:0").await.expect("bind");
+        let addr = listener.local_addr().expect("addr");
+        tokio::spawn(async move {
+            let (mut sock, _) = listener.accept().await.expect("accept");
+            loop {
+                let mut hdr = [0u8; 7];
+                if sock.read_exact(&mut hdr).await.is_err() {
+                    break;
+                }
+                let plen = u16::from_be_bytes([hdr[4], hdr[5]]) as usize;
+                let mut pdu = vec![0u8; plen - 1];
+                if sock.read_exact(&mut pdu).await.is_err() {
+                    break;
+                }
+                let reply_pdu: Vec<u8> = match pdu.first() {
+                    Some(0x03) => vec![0x03, 0x02, 0x00, 0x00], // 1 register = 0
+                    Some(0x2B) if with_device => vec![
+                        0x2B, 0x0E, 0x01, 0x81, 0x00, 0x00, 0x02, // 2 objects
+                        0x00, 0x04, b'A', b'C', b'M', b'E', // vendor
+                        0x01, 0x03, b'P', b'L', b'C', // product
+                    ],
+                    _ => vec![pdu[0] | 0x80, 0x01], // exception
+                };
+                let len = (reply_pdu.len() + 1) as u16;
+                let mut frame = vec![hdr[0], hdr[1], 0x00, 0x00];
+                frame.extend_from_slice(&len.to_be_bytes());
+                frame.push(hdr[6]);
+                frame.extend_from_slice(&reply_pdu);
+                if sock.write_all(&frame).await.is_err() {
+                    break;
+                }
+            }
+        });
+        addr
+    }
+
+    #[tokio::test]
+    async fn probe_detects_a_modbus_endpoint_and_reads_device_id() {
+        let addr = mock_server(true).await;
+        let p = probe(&addr.ip().to_string(), addr.port(), Duration::from_secs(2)).await;
+        assert!(p.reachable && p.speaks_modbus);
+        let dev = p.device.expect("device id");
+        assert_eq!(dev.vendor.as_deref(), Some("ACME"));
+        assert_eq!(dev.product.as_deref(), Some("PLC"));
+    }
+
+    #[tokio::test]
+    async fn probe_reports_unreachable_for_a_closed_port() {
+        // 127.0.0.1:1 is (almost certainly) closed.
+        let p = probe("127.0.0.1", 1, Duration::from_millis(500)).await;
+        assert!(!p.reachable && !p.speaks_modbus);
+    }
+
+    #[test]
+    fn parses_device_identification_objects() {
+        let pdu = [
+            0x2B, 0x0E, 0x01, 0x81, 0x00, 0x00, 0x01, // 1 object
+            0x02, 0x05, b'v', b'1', b'.', b'2', b'3', // revision
+        ];
+        let dev = parse_device_id(&pdu).expect("device");
+        assert_eq!(dev.revision.as_deref(), Some("v1.23"));
+        assert!(dev.vendor.is_none());
+    }
+}

compliance-agent/src/pipeline/ics/opcua.rs

@@ -0,0 +1,131 @@
+//! Minimal OPC UA reachability probe.
+//!
+//! Speaks just the OPC UA Connection Protocol (UACP) handshake — a `HEL` (Hello)
+//! message, expecting an `ACK` (or `ERR`) reply — to confirm an OPC UA server is
+//! listening (default port 4840). It does **not** open a secure channel or make
+//! service calls; deep analysis of the server's SecurityPolicy / user-token
+//! policies (the common `None` + `Anonymous` misconfiguration) is a follow-on best
+//! done with a full OPC UA stack.
+
+use std::time::Duration;
+
+use tokio::io::{AsyncReadExt, AsyncWriteExt};
+use tokio::net::TcpStream;
+use tokio::time::timeout;
+
+/// Outcome of an OPC UA handshake probe.
+#[derive(Debug, Default, PartialEq, Eq)]
+pub struct OpcUaProbe {
+    /// A TCP connection to the port was established.
+    pub reachable: bool,
+    /// The endpoint replied to the UACP Hello (`ACK`) or rejected it (`ERR`) —
+    /// either way it speaks OPC UA.
+    pub is_opcua: bool,
+}
+
+/// Probe an OPC UA endpoint with a UACP Hello. Read-only handshake only.
+pub async fn probe(host: &str, port: u16, budget: Duration) -> OpcUaProbe {
+    let mut out = OpcUaProbe::default();
+    let Ok(Ok(mut stream)) = timeout(budget, TcpStream::connect((host, port))).await else {
+        return out;
+    };
+    out.reachable = true;
+
+    let hello = hello_message(&format!("opc.tcp://{host}:{port}"));
+    if timeout(budget, stream.write_all(&hello))
+        .await
+        .ok()
+        .and_then(Result::ok)
+        .is_none()
+    {
+        return out;
+    }
+
+    // Read the 3-byte message type of the reply: ACK (accepted) or ERR (rejected
+    // our hello) both prove the peer speaks the OPC UA connection protocol.
+    let mut mt = [0u8; 3];
+    if timeout(budget, stream.read_exact(&mut mt))
+        .await
+        .ok()
+        .and_then(Result::ok)
+        .is_none()
+    {
+        return out;
+    }
+    if &mt == b"ACK" || &mt == b"ERR" {
+        out.is_opcua = true;
+    }
+    out
+}
+
+/// Build a UACP `HEL` (Hello) message advertising our buffer sizes + endpoint URL.
+fn hello_message(endpoint_url: &str) -> Vec<u8> {
+    let url = endpoint_url.as_bytes();
+    let mut m = Vec::with_capacity(32 + url.len());
+    m.extend_from_slice(b"HELF");
+    m.extend_from_slice(&0u32.to_le_bytes()); // message size — patched below
+    m.extend_from_slice(&0u32.to_le_bytes()); // ProtocolVersion
+    m.extend_from_slice(&65536u32.to_le_bytes()); // ReceiveBufferSize
+    m.extend_from_slice(&65536u32.to_le_bytes()); // SendBufferSize
+    m.extend_from_slice(&0u32.to_le_bytes()); // MaxMessageSize (0 = no limit)
+    m.extend_from_slice(&0u32.to_le_bytes()); // MaxChunkCount
+    m.extend_from_slice(&(url.len() as i32).to_le_bytes()); // EndpointUrl length
+    m.extend_from_slice(url);
+    let size = m.len() as u32;
+    m[4..8].copy_from_slice(&size.to_le_bytes());
+    m
+}
+
+#[cfg(test)]
+mod tests {
+    use super::*;
+    use tokio::net::TcpListener;
+
+    /// A mock OPC UA server that reads the Hello and replies with an `ACK` frame.
+    async fn mock_server() -> std::net::SocketAddr {
+        let listener = TcpListener::bind("127.0.0.1:0").await.expect("bind");
+        let addr = listener.local_addr().expect("addr");
+        tokio::spawn(async move {
+            let (mut sock, _) = listener.accept().await.expect("accept");
+            // Read the Hello header (8 bytes) to learn the size, then drain it.
+            let mut hdr = [0u8; 8];
+            if sock.read_exact(&mut hdr).await.is_err() {
+                return;
+            }
+            let size = u32::from_le_bytes([hdr[4], hdr[5], hdr[6], hdr[7]]) as usize;
+            let mut rest = vec![0u8; size.saturating_sub(8)];
+            let _ = sock.read_exact(&mut rest).await;
+            // Reply: ACK + size + 5 u32 fields.
+            let mut ack = Vec::new();
+            ack.extend_from_slice(b"ACKF");
+            ack.extend_from_slice(&28u32.to_le_bytes());
+            for _ in 0..5 {
+                ack.extend_from_slice(&0u32.to_le_bytes());
+            }
+            let _ = sock.write_all(&ack).await;
+        });
+        addr
+    }
+
+    #[tokio::test]
+    async fn probe_detects_an_opcua_server() {
+        let addr = mock_server().await;
+        let p = probe(&addr.ip().to_string(), addr.port(), Duration::from_secs(2)).await;
+        assert!(p.reachable && p.is_opcua);
+    }
+
+    #[tokio::test]
+    async fn probe_reports_unreachable_for_a_closed_port() {
+        let p = probe("127.0.0.1", 1, Duration::from_millis(500)).await;
+        assert!(!p.reachable && !p.is_opcua);
+    }
+
+    #[test]
+    fn hello_message_is_well_formed() {
+        let m = hello_message("opc.tcp://h:4840");
+        assert_eq!(&m[0..4], b"HELF");
+        // The embedded size equals the actual length.
+        let size = u32::from_le_bytes([m[4], m[5], m[6], m[7]]) as usize;
+        assert_eq!(size, m.len());
+    }
+}

compliance-agent/src/pipeline/ics/portscan.rs

@@ -0,0 +1,137 @@
+//! TCP service discovery for a device.
+//!
+//! Connect-scans a curated set of OT/ICS and insecure-management ports and reports
+//! the ones that are open. The deep protocol probes own Modbus (502), OPC UA
+//! (4840) and EtherNet/IP (44818); this surfaces the *rest* of the industrial and
+//! cleartext-management surface (Siemens S7, DNP3, CODESYS programming, Telnet, …).
+
+use std::time::Duration;
+
+use futures_util::future::join_all;
+use tokio::net::TcpStream;
+use tokio::time::timeout;
+
+/// Whether an open port is an industrial protocol or an insecure management service.
+#[derive(Debug, Clone, Copy, PartialEq, Eq)]
+pub enum PortKind {
+    /// An industrial control protocol (typically unauthenticated).
+    Ics,
+    /// A cleartext management service (credentials/data in the clear).
+    InsecureMgmt,
+}
+
+/// A well-known port worth flagging when open.
+#[derive(Debug, Clone, Copy)]
+pub struct KnownPort {
+    pub port: u16,
+    pub service: &'static str,
+    pub kind: PortKind,
+    pub note: &'static str,
+}
+
+/// The curated scan list. Excludes 502 / 4840 / 44818 — those have dedicated deep
+/// probes (Modbus, OPC UA, EtherNet/IP) that report richer findings.
+pub const KNOWN_PORTS: &[KnownPort] = &[
+    KnownPort {
+        port: 102,
+        service: "S7comm / ISO-TSAP",
+        kind: PortKind::Ics,
+        note: "Siemens S7 PLC communication",
+    },
+    KnownPort {
+        port: 20000,
+        service: "DNP3",
+        kind: PortKind::Ics,
+        note: "SCADA / DNP3",
+    },
+    KnownPort {
+        port: 1911,
+        service: "Niagara Fox",
+        kind: PortKind::Ics,
+        note: "Tridium Niagara building automation",
+    },
+    KnownPort {
+        port: 11740,
+        service: "CODESYS",
+        kind: PortKind::Ics,
+        note: "CODESYS programming protocol",
+    },
+    KnownPort {
+        port: 1962,
+        service: "PCWorx",
+        kind: PortKind::Ics,
+        note: "Phoenix Contact PCWorx",
+    },
+    KnownPort {
+        port: 9600,
+        service: "OMRON FINS",
+        kind: PortKind::Ics,
+        note: "Omron FINS",
+    },
+    KnownPort {
+        port: 789,
+        service: "Red Lion Crimson",
+        kind: PortKind::Ics,
+        note: "Red Lion controllers",
+    },
+    KnownPort {
+        port: 23,
+        service: "Telnet",
+        kind: PortKind::InsecureMgmt,
+        note: "cleartext remote shell",
+    },
+    KnownPort {
+        port: 21,
+        service: "FTP",
+        kind: PortKind::InsecureMgmt,
+        note: "cleartext file transfer",
+    },
+];
+
+/// Connect-scan `ports` on `host` (concurrently) and return those that accept a
+/// TCP connection.
+pub async fn scan<'a>(host: &str, ports: &'a [KnownPort], budget: Duration) -> Vec<&'a KnownPort> {
+    let checks = ports.iter().map(|kp| async move {
+        let open = timeout(budget, TcpStream::connect((host, kp.port)))
+            .await
+            .map(|r| r.is_ok())
+            .unwrap_or(false);
+        (kp, open)
+    });
+    join_all(checks)
+        .await
+        .into_iter()
+        .filter_map(|(kp, open)| open.then_some(kp))
+        .collect()
+}
+
+#[cfg(test)]
+mod tests {
+    use super::*;
+    use tokio::net::TcpListener;
+
+    #[tokio::test]
+    async fn scan_reports_only_open_ports() {
+        // Bind one port (open) and pick another that is closed.
+        let listener = TcpListener::bind("127.0.0.1:0").await.expect("bind");
+        let open_port = listener.local_addr().expect("addr").port();
+
+        let ports = [
+            KnownPort {
+                port: open_port,
+                service: "test-open",
+                kind: PortKind::Ics,
+                note: "",
+            },
+            KnownPort {
+                port: 1,
+                service: "test-closed",
+                kind: PortKind::InsecureMgmt,
+                note: "",
+            },
+        ];
+        let found = scan("127.0.0.1", &ports, Duration::from_millis(500)).await;
+        let services: Vec<&str> = found.iter().map(|p| p.service).collect();
+        assert_eq!(services, vec!["test-open"]);
+    }
+}

compliance-agent/src/pipeline/issue_creation.rs

@@ -1,5 +1,6 @@
 use mongodb::bson::doc;
 
+use crate::pipeline::repo_view::RepoView;
 use compliance_core::models::*;
 
 use super::orchestrator::{extract_base_url, PipelineOrchestrator};
@@ -10,7 +11,7 @@ use crate::trackers;
 impl PipelineOrchestrator {
     /// Build an issue tracker client from a repository's tracker configuration.
     /// Returns `None` if the repo has no tracker configured.
-    pub(super) fn build_tracker(&self, repo: &TrackedRepository) -> Option<TrackerDispatch> {
+    pub(super) fn build_tracker(&self, repo: &RepoView) -> Option<TrackerDispatch> {
         let tracker_type = repo.tracker_type.as_ref()?;
         // Per-repo token takes precedence, fall back to global config
         match tracker_type {
@@ -81,7 +82,7 @@ impl PipelineOrchestrator {
     #[tracing::instrument(skip_all, fields(repo_id = %repo_id))]
     pub(super) async fn create_tracker_issues(
         &self,
-        repo: &TrackedRepository,
+        repo: &RepoView,
         repo_id: &str,
         new_findings: &[Finding],
     ) -> Result<(), AgentError> {

compliance-agent/src/pipeline/mod.rs

@@ -5,12 +5,15 @@ pub mod firmware_sbom;
 pub mod git;
 pub mod gitleaks;
 mod graph_build;
+pub mod ics;
 mod issue_creation;
 pub mod lint;
 pub mod orchestrator;
 pub mod patterns;
 pub mod plan;
+pub mod plc;
 mod pr_review;
+pub mod repo_view;
 pub mod sbom;
 pub mod semgrep;
 mod tracker_dispatch;

compliance-agent/src/pipeline/orchestrator.rs

@@ -16,6 +16,7 @@ use crate::pipeline::gitleaks::GitleaksScanner;
 use crate::pipeline::lint::LintScanner;
 use crate::pipeline::patterns::{GdprPatternScanner, OAuthPatternScanner};
 use crate::pipeline::plan::build_scan_plan;
+use crate::pipeline::repo_view::RepoView;
 use crate::pipeline::sbom::SbomScanner;
 use crate::pipeline::semgrep::SemgrepScanner;
 
@@ -51,72 +52,8 @@ impl PipelineOrchestrator {
         }
     }
 
-    #[tracing::instrument(skip_all, fields(repo_id = %repo_id, trigger = ?trigger))]
-    pub async fn run(&self, repo_id: &str, trigger: ScanTrigger) -> Result<(), AgentError> {
-        // Look up the repository
-        let repo = self
-            .db
-            .repositories()
-            .find_one(doc! { "_id": mongodb::bson::oid::ObjectId::parse_str(repo_id).map_err(|e| AgentError::Other(e.to_string()))? })
-            .await?
-            .ok_or_else(|| AgentError::Other(format!("Repository {repo_id} not found")))?;
-
-        // Create scan run
-        let scan_run = ScanRun::new(repo_id.to_string(), trigger);
-        let insert = self.db.scan_runs().insert_one(&scan_run).await?;
-        let scan_run_id = insert
-            .inserted_id
-            .as_object_id()
-            .map(|id| id.to_hex())
-            .unwrap_or_default();
-
-        let result = self.run_pipeline(&repo, &scan_run_id).await;
-
-        // Update scan run status
-        match &result {
-            Ok(count) => {
-                self.db
-                    .scan_runs()
-                    .update_one(
-                        doc! { "_id": &insert.inserted_id },
-                        doc! {
-                            "$set": {
-                                "status": "completed",
-                                "current_phase": "completed",
-                                "new_findings_count": *count as i64,
-                                "completed_at": mongodb::bson::DateTime::now(),
-                            }
-                        },
-                    )
-                    .await?;
-            }
-            Err(e) => {
-                tracing::error!(repo_id, error = %e, "Scan pipeline failed");
-                self.db
-                    .scan_runs()
-                    .update_one(
-                        doc! { "_id": &insert.inserted_id },
-                        doc! {
-                            "$set": {
-                                "status": "failed",
-                                "error_message": e.to_string(),
-                                "completed_at": mongodb::bson::DateTime::now(),
-                            }
-                        },
-                    )
-                    .await?;
-            }
-        }
-
-        result.map(|_| ())
-    }
-
     #[tracing::instrument(skip_all, fields(repo_id = repo.name.as_str()))]
-    async fn run_pipeline(
-        &self,
-        repo: &TrackedRepository,
-        scan_run_id: &str,
-    ) -> Result<u32, AgentError> {
+    async fn run_pipeline(&self, repo: &RepoView, scan_run_id: &str) -> Result<u32, AgentError> {
         let repo_id = repo.id.as_ref().map(|id| id.to_hex()).unwrap_or_default();
 
         // Stage 0: Change detection
@@ -130,7 +67,6 @@ impl PipelineOrchestrator {
             return Ok(0);
         }
 
-        let current_sha = GitOps::get_head_sha(&repo_path)?;
         let mut all_findings: Vec<Finding> = Vec::new();
 
         // Stage 1: Semgrep SAST
@@ -323,67 +259,12 @@ impl PipelineOrchestrator {
                 .await?;
         }
 
-        // Persist CVE alerts and create notifications
-        {
-            use compliance_core::models::notification::{parse_severity, CveNotification};
-
-            let repo_name = repo.name.clone();
-            let mut new_notif_count = 0u32;
-
-            for alert in &cve_alerts {
-                // Upsert the alert
-                let filter = doc! {
-                    "cve_id": &alert.cve_id,
-                    "repo_id": &alert.repo_id,
-                };
-                let update = mongodb::bson::to_document(alert)
-                    .map(|d| doc! { "$set": d })
-                    .unwrap_or_else(|_| doc! {});
-                self.db
-                    .cve_alerts()
-                    .update_one(filter, update)
-                    .upsert(true)
-                    .await?;
-
-                // Create notification (dedup by cve_id + repo + package + version)
-                let notif_filter = doc! {
-                    "cve_id": &alert.cve_id,
-                    "repo_id": &alert.repo_id,
-                    "package_name": &alert.affected_package,
-                    "package_version": &alert.affected_version,
-                };
-                let severity = parse_severity(alert.severity.as_deref(), alert.cvss_score);
-                let mut notification = CveNotification::new(
-                    alert.cve_id.clone(),
-                    repo_id.clone(),
-                    repo_name.clone(),
-                    alert.affected_package.clone(),
-                    alert.affected_version.clone(),
-                    severity,
-                );
-                notification.cvss_score = alert.cvss_score;
-                notification.summary = alert.summary.clone();
-                notification.url = Some(format!("https://osv.dev/vulnerability/{}", alert.cve_id));
-
-                let notif_update = doc! {
-                    "$setOnInsert": mongodb::bson::to_bson(&notification).unwrap_or_default()
-                };
-                if let Ok(result) = self
-                    .db
-                    .cve_notifications()
-                    .update_one(notif_filter, notif_update)
-                    .upsert(true)
-                    .await
-                {
-                    if result.upserted_id.is_some() {
-                        new_notif_count += 1;
-                    }
-                }
-            }
-
-            if new_notif_count > 0 {
-                tracing::info!("[{repo_id}] Created {new_notif_count} CVE notification(s)");
-            }
+        // Persist CVE alerts and create notifications (shared with the PLC path).
+        let new_notif_count = self
+            .persist_cve_alerts(&repo_id, &repo.name, &cve_alerts)
+            .await?;
+        if new_notif_count > 0 {
+            tracing::info!("[{repo_id}] Created {new_notif_count} CVE notification(s)");
         }
 
         // Stage 6: Issue Creation
@@ -396,20 +277,9 @@ impl PipelineOrchestrator {
             tracing::warn!("[{repo_id}] Issue creation failed: {e}");
         }
 
-        // Stage 7: Update repository
-        self.db
-            .repositories()
-            .update_one(
-                doc! { "_id": repo.id },
-                doc! {
-                    "$set": {
-                        "last_scanned_commit": &current_sha,
-                        "updated_at": mongodb::bson::DateTime::now(),
-                    },
-                    "$inc": { "findings_count": new_count as i64 },
-                },
-            )
-            .await?;
+        // The onboarded target's findings_count and the git artifact's
+        // last_scanned_commit watermark are persisted by `finalize_target` after
+        // `run_pipeline` returns.
 
         // Stage 8: DAST (async, optional — only if a DastTarget is configured)
         tracing::info!("[{repo_id}] Stage 8: Checking for DAST targets");
@@ -524,33 +394,334 @@ impl PipelineOrchestrator {
         // wizard-created targets, not just migrated ones.
         self.ensure_dast_target(target, &plan).await;
 
+        // PLC/SPS targets: the control-logic scan consumes the PLC source (an
+        // uploaded PlcProject *or* a git repo / source archive of PLCopen XML / ST
+        // exports), so it takes over the code artifact — we don't also run the
+        // SAST pipeline over it. A PLC device is reachable, so DAST still runs
+        // against a WebVisu / exposed endpoint when one is provisioned.
+        let mut new_count = 0u32;
+        let plc = plan.has(ScanType::PlcControlLogic);
+        let ics = plan.has(ScanType::IcsProbe);
+        if plc {
+            new_count += self.run_plc_scan(target, &target_id, scan_run_id).await?;
+        }
+        if ics {
+            new_count += self.run_ics_probe(target, &target_id, scan_run_id).await?;
+        }
+        if plc || ics {
+            // PLC/SPS device: also DAST against a WebVisu / exposed endpoint, but
+            // only when DAST is actually planned — a device reachable only over an
+            // industrial protocol (e.g. modbus://) has no web surface to crawl, and
+            // running DAST there just fails at reconnaissance. Gating here (not only
+            // at provisioning) also stops a DAST target left over from an earlier
+            // run from re-triggering. The control-logic scan already consumed the
+            // code artifact, so the SAST pipeline is not re-run.
+            if plan.has(ScanType::Dast) {
+                self.update_phase(scan_run_id, "dast_scanning").await;
+                self.maybe_trigger_dast(&target_id, scan_run_id).await;
+            }
+            return Ok(new_count);
+        }
+
         match target.code_artifact() {
             Some(code) if code.kind == ArtifactKind::GitRepo => {
-                let repo = repo_view_from_target(target, code);
-                let new_count = self.run_pipeline(&repo, scan_run_id).await?;
-                self.finalize_target(target, &repo, new_count).await?;
-                Ok(new_count)
+                let repo = RepoView::from_target(target, code);
+                let n = self.run_pipeline(&repo, scan_run_id).await?;
+                self.finalize_target(target, &repo, n).await?;
+                new_count += n;
             }
             Some(_) => {
                 tracing::warn!(
                     target_id = %target_id,
                     "Unified pipeline: source-archive scanning not yet wired; skipping"
                 );
-                Ok(0)
             }
             None => {
-                // No code to scan. Firmware/PLC/mobile static scanners land in
-                // #128/#129/#130; DAST for a running URL still works when a
-                // DastTarget row exists (migrated targets).
+                // No code to scan (a migrated DAST target). Firmware/mobile static
+                // scanners land in #128/#129; DAST for a running URL works when a
+                // DastTarget row exists (provisioned above from a LiveUrl, or from
+                // a migrated target).
                 tracing::info!(
                     target_id = %target_id,
-                    "Unified pipeline: no code artifact; attempting DAST only"
+                    "Unified pipeline: no code artifact; attempting DAST"
                 );
                 self.update_phase(scan_run_id, "dast_scanning").await;
                 self.maybe_trigger_dast(&target_id, scan_run_id).await;
-                Ok(0)
             }
         }
+        Ok(new_count)
+    }
+
+    /// Analyze a PLC/SPS project (Structured Text / PLCopen XML) for
+    /// control-logic security issues and persist the new findings.
+    async fn run_plc_scan(
+        &self,
+        target: &OnboardedTarget,
+        target_id: &str,
+        scan_run_id: &str,
+    ) -> Result<u32, AgentError> {
+        tracing::info!(target_id, "[{target_id}] PLC control-logic analysis");
+        self.update_phase(scan_run_id, "plc_analysis").await;
+
+        let ctx = crate::ingest::IngestContext::from_config(&self.config, target_id);
+        let ingest_set = crate::ingest::ingest_all(target, &ctx)?;
+        // Every PLC-source artifact on the target: dedicated PLC projects plus any
+        // code artifacts (git repo / source archive) holding PLCopen XML / ST
+        // exports. A target can carry several (e.g. one POU export per file).
+        let sources: Vec<&Artifact> = target
+            .artifacts
+            .iter()
+            .filter(|a| {
+                matches!(
+                    a.kind,
+                    ArtifactKind::PlcProject | ArtifactKind::GitRepo | ArtifactKind::SourceArchive
+                )
+            })
+            .collect();
+        if sources.is_empty() {
+            tracing::warn!(target_id, "PLC scan: no PLC source artifact");
+            return Ok(0);
+        }
+
+        let mut all_findings = Vec::new();
+        let mut all_sbom: Vec<SbomEntry> = Vec::new();
+        let mut sbom_seen = std::collections::BTreeSet::new();
+        for a in &sources {
+            let Some(path) = ingest_set.get(&a.id).and_then(|ia| ia.working_path.clone()) else {
+                continue;
+            };
+            all_findings.extend(crate::pipeline::plc::analyze_tree(&path, target_id));
+            // Control-application SBOM: CODESYS libraries + runtime from a
+            // `.projectarchive` (uploaded, or committed in the working tree).
+            let archive = a
+                .stored_path
+                .clone()
+                .unwrap_or_else(|| a.source_ref.clone());
+            for e in crate::pipeline::plc::sbom::collect_sbom(
+                std::path::Path::new(&archive),
+                &path,
+                target_id,
+            ) {
+                if sbom_seen.insert((e.name.clone(), e.version.clone())) {
+                    all_sbom.push(e);
+                }
+            }
+        }
+        tracing::info!(
+            target_id,
+            artifacts = sources.len(),
+            found = all_findings.len(),
+            "PLC control-logic analysis complete"
+        );
+
+        let mut new_count = 0u32;
+        for mut finding in all_findings {
+            finding.scan_run_id = Some(scan_run_id.to_string());
+            if self
+                .db
+                .findings()
+                .find_one(doc! { "fingerprint": &finding.fingerprint })
+                .await?
+                .is_none()
+            {
+                self.db.findings().insert_one(&finding).await?;
+                new_count += 1;
+            }
+        }
+
+        if !all_sbom.is_empty() {
+            if let Err(e) = self
+                .persist_control_app_sbom(target_id, &target.name, all_sbom)
+                .await
+            {
+                tracing::warn!(target_id, error = %e, "control-app SBOM persist failed");
+            }
+        }
+        Ok(new_count)
+    }
+
+    /// Probe a running PLC/SPS device over industrial protocols (Modbus/TCP, …)
+    /// and persist findings for exposed / unauthenticated control access. The
+    /// probe is read-only; it targets the Modbus port of the target's live URL.
+    async fn run_ics_probe(
+        &self,
+        target: &OnboardedTarget,
+        target_id: &str,
+        scan_run_id: &str,
+    ) -> Result<u32, AgentError> {
+        self.update_phase(scan_run_id, "ics_probe").await;
+        let Some(endpoint) = target.live_url().map(|a| a.source_ref.clone()) else {
+            tracing::warn!(target_id, "ICS probe: no live URL");
+            return Ok(0);
+        };
+        // Short per-request budget so an unreachable device doesn't stall the scan.
+        let budget = std::time::Duration::from_secs(5);
+        let findings = crate::pipeline::ics::probe_target(&endpoint, target_id, budget).await;
+        tracing::info!(
+            target_id,
+            endpoint = %endpoint,
+            found = findings.len(),
+            "ICS probe complete"
+        );
+        let mut new_count = 0u32;
+        for mut finding in findings {
+            finding.scan_run_id = Some(scan_run_id.to_string());
+            if self
+                .db
+                .findings()
+                .find_one(doc! { "fingerprint": &finding.fingerprint })
+                .await?
+                .is_none()
+            {
+                self.db.findings().insert_one(&finding).await?;
+                new_count += 1;
+            }
+        }
+        Ok(new_count)
+    }
+
+    /// Store a control-application SBOM (CODESYS libraries + runtime) for a target
+    /// and match it against known CVEs. Scoped to `package_manager = "codesys"` so
+    /// it refreshes on re-scan and coexists with any firmware/source SBOM. The
+    /// runtime `Cmp*` / `3SLicense` components carry real CODESYS advisories, so
+    /// this is where PLC-device CVE coverage comes from.
+    async fn persist_control_app_sbom(
+        &self,
+        target_id: &str,
+        target_name: &str,
+        mut entries: Vec<SbomEntry>,
+    ) -> Result<(), AgentError> {
+        if entries.is_empty() {
+            return Ok(());
+        }
+        self.db
+            .sbom_entries()
+            .delete_many(doc! { "repo_id": target_id, "package_manager": "codesys" })
+            .await?;
+
+        let cve_scanner = CveScanner::new(
+            self.http.clone(),
+            self.config.searxng_url.clone(),
+            self.config.nvd_api_key.as_ref().map(|k| {
+                use secrecy::ExposeSecret;
+                k.expose_secret().to_string()
+            }),
+        );
+        let mut alerts = match tokio::time::timeout(
+            std::time::Duration::from_secs(600),
+            cve_scanner.scan_dependencies(target_id, &mut entries),
+        )
+        .await
+        {
+            Ok(Ok(a)) => a,
+            Ok(Err(e)) => {
+                tracing::warn!(target_id, error = %e, "control-app CVE scan failed");
+                Vec::new()
+            }
+            Err(_) => {
+                tracing::warn!(target_id, "control-app CVE scan timed out");
+                Vec::new()
+            }
+        };
+        // OSV can't match `pkg:codesys/*` (no such ecosystem); CODESYS advisories
+        // live in NVD keyed by CPE + runtime version. Add those (best-effort).
+        if let Ok(codesys) = tokio::time::timeout(
+            std::time::Duration::from_secs(120),
+            cve_scanner.scan_codesys(target_id, &mut entries),
+        )
+        .await
+        {
+            alerts.extend(codesys);
+        } else {
+            tracing::warn!(target_id, "CODESYS CVE match timed out");
+        }
+
+        for entry in &entries {
+            let filter = doc! {
+                "repo_id": &entry.repo_id,
+                "name": &entry.name,
+                "version": &entry.version,
+            };
+            if let Ok(d) = mongodb::bson::to_document(entry) {
+                self.db
+                    .sbom_entries()
+                    .update_one(filter, doc! { "$set": d })
+                    .upsert(true)
+                    .await?;
+            }
+        }
+        let new_notifs = self
+            .persist_cve_alerts(target_id, target_name, &alerts)
+            .await?;
+        tracing::info!(
+            target_id,
+            components = entries.len(),
+            alerts = alerts.len(),
+            notifications = new_notifs,
+            "control-app SBOM stored"
+        );
+        Ok(())
+    }
+
+    /// Upsert CVE alerts for a target and create dedup'd CVE notifications;
+    /// returns the number of newly-created notifications. Shared by the SAST
+    /// pipeline and the PLC control-app SBOM path, so every SBOM source (source,
+    /// firmware, CODESYS libraries/runtime) raises the same notifications.
+    async fn persist_cve_alerts(
+        &self,
+        repo_id: &str,
+        repo_name: &str,
+        alerts: &[CveAlert],
+    ) -> Result<u32, AgentError> {
+        use compliance_core::models::notification::{parse_severity, CveNotification};
+
+        let mut new_notif = 0u32;
+        for alert in alerts {
+            let filter = doc! { "cve_id": &alert.cve_id, "repo_id": &alert.repo_id };
+            let update = mongodb::bson::to_document(alert)
+                .map(|d| doc! { "$set": d })
+                .unwrap_or_else(|_| doc! {});
+            self.db
+                .cve_alerts()
+                .update_one(filter, update)
+                .upsert(true)
+                .await?;
+
+            // Dedup notifications by cve + repo + package + version.
+            let notif_filter = doc! {
+                "cve_id": &alert.cve_id,
+                "repo_id": &alert.repo_id,
+                "package_name": &alert.affected_package,
+                "package_version": &alert.affected_version,
+            };
+            let severity = parse_severity(alert.severity.as_deref(), alert.cvss_score);
+            let mut notification = CveNotification::new(
+                alert.cve_id.clone(),
+                repo_id.to_string(),
+                repo_name.to_string(),
+                alert.affected_package.clone(),
+                alert.affected_version.clone(),
+                severity,
+            );
+            notification.cvss_score = alert.cvss_score;
+            notification.summary = alert.summary.clone();
+            notification.url = Some(format!("https://osv.dev/vulnerability/{}", alert.cve_id));
+            let notif_update = doc! {
+                "$setOnInsert": mongodb::bson::to_bson(&notification).unwrap_or_default()
+            };
+            if let Ok(result) = self
+                .db
+                .cve_notifications()
+                .update_one(notif_filter, notif_update)
+                .upsert(true)
+                .await
+            {
+                if result.upserted_id.is_some() {
+                    new_notif += 1;
+                }
+            }
+        }
+        Ok(new_notif)
     }
 
     /// Ingest the target's artifacts, classify (tramiton for firmware/RTOS/Yocto,
@@ -703,7 +874,7 @@ impl PipelineOrchestrator {
     async fn finalize_target(
         &self,
         target: &OnboardedTarget,
-        repo: &TrackedRepository,
+        repo: &RepoView,
         new_count: u32,
     ) -> Result<(), AgentError> {
         let oid = match target.id {
@@ -751,37 +922,6 @@ impl PipelineOrchestrator {
     }
 }
 
-/// Build a legacy `TrackedRepository` view from an onboarded target's code
-/// artifact, so the unified pipeline can reuse the existing repo pipeline. The
-/// inverse of the migration's `repo_to_target`. `_id` is preserved so findings
-/// and DAST lookups resolve against the same key.
-fn repo_view_from_target(target: &OnboardedTarget, code: &Artifact) -> TrackedRepository {
-    let mut repo = TrackedRepository::new(target.name.clone(), code.source_ref.clone());
-    repo.id = target.id;
-    if let Some(git) = &code.git {
-        repo.default_branch = git.default_branch.clone();
-        repo.last_scanned_commit = git.last_scanned_commit.clone();
-        repo.local_path = git.local_path.clone();
-    }
-    if let Some(auth) = &code.auth {
-        repo.auth_token = auth.secret.clone();
-        repo.auth_username = auth.username.clone();
-    }
-    if let Some(it) = &target.scan_config.issue_tracker {
-        repo.tracker_type = it.tracker_type.clone();
-        repo.tracker_owner = it.owner.clone();
-        repo.tracker_repo = it.repo.clone();
-        repo.tracker_token = it.token.clone();
-    }
-    repo.scan_schedule = target.scan_schedule.clone();
-    repo.webhook_enabled = target.webhook_enabled;
-    repo.webhook_secret = target.webhook_secret.clone();
-    repo.findings_count = target.findings_count;
-    repo.created_at = target.created_at;
-    repo.updated_at = target.updated_at;
-    repo
-}
-
 /// Extract the scheme + host from a git URL.
 /// e.g. "https://gitea.example.com/owner/repo.git" -> "https://gitea.example.com"
 /// e.g. "ssh://git@gitea.example.com:22/owner/repo.git" -> "https://gitea.example.com"
@@ -840,7 +980,7 @@ mod tests {
         target.artifacts.push(artifact);
 
         let code = target.code_artifact().expect("code artifact");
-        let repo = repo_view_from_target(&target, code);
+        let repo = RepoView::from_target(&target, code);
 
         assert_eq!(repo.id, target.id); // preserved
         assert_eq!(repo.git_url, "https://git/acme.git");

compliance-agent/src/pipeline/plan.rs

@@ -75,10 +75,16 @@ pub fn build_scan_plan(target: &OnboardedTarget) -> ScanPlan {
 }
 
 /// Resolve the artifact a scan consumes. A "code" requirement (represented by
-/// `GitRepo`) is satisfied by a git repo *or* a source archive.
+/// `GitRepo`) is satisfied by a git repo *or* a source archive. The PLC
+/// control-logic requirement (represented by `PlcProject`) prefers an uploaded
+/// PLC project but also accepts a code artifact — a git repo / source archive
+/// holding PLCopen XML / ST exports.
 fn resolve_artifact(target: &OnboardedTarget, required: Option<ArtifactKind>) -> Option<&Artifact> {
     match required {
         Some(ArtifactKind::GitRepo) => target.code_artifact(),
+        Some(ArtifactKind::PlcProject) => target
+            .first_of(ArtifactKind::PlcProject)
+            .or_else(|| target.code_artifact()),
         Some(kind) => target.first_of(kind),
         None => target.code_artifact().or_else(|| target.artifacts.first()),
     }
@@ -100,6 +106,7 @@ fn phase_for(scan: ScanType) -> ScanPhase {
         ScanType::PlcControlLogic => ScanPhase::PlcAnalysis,
         ScanType::MobileStatic => ScanPhase::MobileStatic,
         ScanType::ContainerScan => ScanPhase::ContainerScan,
+        ScanType::IcsProbe => ScanPhase::IcsProbe,
     }
 }
 
@@ -174,6 +181,18 @@ mod tests {
         assert_eq!(plan.steps[0].phase, ScanPhase::PlcAnalysis);
     }
 
+    #[test]
+    fn plc_control_logic_binds_to_a_git_repo() {
+        // A CODESYS project in git (PLCopen XML / ST exports) with no uploaded
+        // PlcProject: control-logic still plans, bound to the git artifact.
+        let git = Artifact::git_repo("https://git/plc", "main");
+        let git_id = git.id.clone();
+        let t = target(TargetType::PlcSps, vec![git]);
+        let plan = build_scan_plan(&t);
+        let step = step_for(&plan, ScanType::PlcControlLogic).expect("control-logic planned");
+        assert_eq!(step.artifact_id, git_id, "PLC scan binds to the git repo");
+    }
+
     #[test]
     fn disabled_scan_is_dropped_and_off_by_default_can_be_enabled() {
         let mut t = target(TargetType::WebApp, vec![Artifact::git_repo("u", "main")]);

compliance-agent/src/pipeline/plc/ast.rs

@@ -0,0 +1,226 @@
+//! Abstract syntax tree for IEC 61131-3 Structured Text (ST).
+//!
+//! This is the security-relevant subset: POUs with their variable declarations
+//! and statement bodies, enough to run semantic control-logic rules over. It is
+//! deliberately not a full language model — declarations we don't reason about
+//! (e.g. exotic type definitions) are parsed loosely and kept as raw text.
+
+/// A Program Organization Unit: a PROGRAM, FUNCTION, or FUNCTION_BLOCK.
+#[derive(Debug, Clone)]
+pub struct Pou {
+    pub name: String,
+    pub kind: PouKind,
+    /// The declared variables, across all VAR_* sections.
+    pub vars: Vec<VarDecl>,
+    /// The statement body.
+    pub body: Vec<Stmt>,
+    /// 1-based line where the POU header appears (in the source that was parsed).
+    pub line: u32,
+}
+
+#[derive(Debug, Clone, Copy, PartialEq, Eq)]
+pub enum PouKind {
+    Program,
+    Function,
+    FunctionBlock,
+}
+
+impl PouKind {
+    pub fn label(self) -> &'static str {
+        match self {
+            PouKind::Program => "PROGRAM",
+            PouKind::Function => "FUNCTION",
+            PouKind::FunctionBlock => "FUNCTION_BLOCK",
+        }
+    }
+}
+
+/// A single declared variable.
+#[derive(Debug, Clone)]
+pub struct VarDecl {
+    pub name: String,
+    pub section: VarSection,
+    /// The declared type as written (e.g. `BOOL`, `INT`, `ARRAY[0..9] OF INT`).
+    pub type_name: String,
+    /// Whether the type is an ARRAY, and its declared bounds `(lo, hi)` when
+    /// they are literal integers — used by the array-bounds rule.
+    pub array_bounds: Option<(i64, i64)>,
+    /// The initializer expression, if any (`:= <expr>`).
+    pub init: Option<Expr>,
+    pub line: u32,
+}
+
+#[derive(Debug, Clone, Copy, PartialEq, Eq)]
+pub enum VarSection {
+    Var,
+    Input,
+    Output,
+    InOut,
+    Global,
+    Temp,
+    External,
+}
+
+/// A statement.
+#[derive(Debug, Clone)]
+pub enum Stmt {
+    Assign {
+        target: Expr,
+        value: Expr,
+        line: u32,
+    },
+    If {
+        /// (condition, body) for IF and each ELSIF, in order.
+        branches: Vec<(Expr, Vec<Stmt>)>,
+        else_body: Option<Vec<Stmt>>,
+        line: u32,
+    },
+    Case {
+        selector: Expr,
+        /// (label expressions, body) per CASE arm.
+        arms: Vec<(Vec<Expr>, Vec<Stmt>)>,
+        else_body: Option<Vec<Stmt>>,
+        line: u32,
+    },
+    For {
+        var: String,
+        from: Expr,
+        to: Expr,
+        by: Option<Expr>,
+        body: Vec<Stmt>,
+        line: u32,
+    },
+    While {
+        cond: Expr,
+        body: Vec<Stmt>,
+        line: u32,
+    },
+    Repeat {
+        body: Vec<Stmt>,
+        until: Expr,
+        line: u32,
+    },
+    /// A bare call statement, e.g. `TON1(IN := x, PT := T#5s);`.
+    Call {
+        callee: String,
+        args: Vec<CallArg>,
+        line: u32,
+    },
+    Return {
+        line: u32,
+    },
+    Exit {
+        line: u32,
+    },
+    /// `JMP label;` — an unstructured jump.
+    Jump {
+        label: String,
+        line: u32,
+    },
+    /// `label:` — a jump target.
+    Label {
+        name: String,
+        line: u32,
+    },
+}
+
+/// One argument in a call: positional (`name: None`) or named (`X := expr`).
+#[derive(Debug, Clone)]
+pub struct CallArg {
+    pub name: Option<String>,
+    pub value: Expr,
+}
+
+/// An expression.
+#[derive(Debug, Clone)]
+pub enum Expr {
+    Int(i64, u32),
+    Real(f64, u32),
+    Bool(bool, u32),
+    /// A string literal, with the unquoted contents.
+    Str(String, u32),
+    /// A duration / date / time literal, kept as raw text (`T#5s`, `DT#...`).
+    Time(String, u32),
+    Ident(String, u32),
+    /// `base[index]`.
+    Index {
+        base: Box<Expr>,
+        index: Box<Expr>,
+        line: u32,
+    },
+    /// `base.field`.
+    Member {
+        base: Box<Expr>,
+        field: String,
+        line: u32,
+    },
+    Unary {
+        op: UnOp,
+        expr: Box<Expr>,
+        line: u32,
+    },
+    Binary {
+        op: BinOp,
+        lhs: Box<Expr>,
+        rhs: Box<Expr>,
+        line: u32,
+    },
+    /// A function call used as an expression, e.g. `LIMIT(a, b, c)`.
+    Call {
+        callee: String,
+        args: Vec<CallArg>,
+        line: u32,
+    },
+}
+
+impl Expr {
+    /// The 1-based source line this expression starts on.
+    pub fn line(&self) -> u32 {
+        match self {
+            Expr::Int(_, l)
+            | Expr::Real(_, l)
+            | Expr::Bool(_, l)
+            | Expr::Str(_, l)
+            | Expr::Time(_, l)
+            | Expr::Ident(_, l)
+            | Expr::Index { line: l, .. }
+            | Expr::Member { line: l, .. }
+            | Expr::Unary { line: l, .. }
+            | Expr::Binary { line: l, .. }
+            | Expr::Call { line: l, .. } => *l,
+        }
+    }
+
+    /// If this expression is a plain identifier, its name.
+    pub fn as_ident(&self) -> Option<&str> {
+        match self {
+            Expr::Ident(name, _) => Some(name.as_str()),
+            _ => None,
+        }
+    }
+}
+
+#[derive(Debug, Clone, Copy, PartialEq, Eq)]
+pub enum UnOp {
+    Not,
+    Neg,
+}
+
+#[derive(Debug, Clone, Copy, PartialEq, Eq)]
+pub enum BinOp {
+    Add,
+    Sub,
+    Mul,
+    Div,
+    Mod,
+    Pow,
+    Eq,
+    Ne,
+    Lt,
+    Le,
+    Gt,
+    Ge,
+    And,
+    Or,
+    Xor,
+}

compliance-agent/src/pipeline/plc/lexer.rs

@@ -0,0 +1,372 @@
+//! Lexer for IEC 61131-3 Structured Text.
+//!
+//! Tokenizes ST source into a flat token stream with 1-based line numbers.
+//! Keywords are case-insensitive. Handles `(* *)` and `//` comments, `'..'` and
+//! `".."` strings (with `''`/`""` escapes), based integers (`16#FF`, `2#1010`),
+//! and duration/date literals (`T#5s`, `DT#...`) kept as raw text.
+
+/// A lexed token with its source line.
+#[derive(Debug, Clone)]
+pub struct Token {
+    pub kind: Tok,
+    pub line: u32,
+}
+
+#[derive(Debug, Clone, PartialEq)]
+pub enum Tok {
+    Int(i64),
+    Real(f64),
+    Str(String),
+    Time(String),
+    Bool(bool),
+    Ident(String),
+    Kw(Keyword),
+    Assign, // :=
+    Plus,   // +
+    Minus,  // -
+    Star,   // *
+    Slash,  // /
+    Power,  // **
+    LParen, // (
+    RParen, // )
+    LBrack, // [
+    RBrack, // ]
+    Dot,    // .
+    DotDot, // ..
+    Comma,  // ,
+    Semi,   // ;
+    Colon,  // :
+    Lt,     // <
+    Le,     // <=
+    Gt,     // >
+    Ge,     // >=
+    Eq,     // =
+    Ne,     // <>
+    Amp,    // &
+    Eof,
+}
+
+#[derive(Debug, Clone, Copy, PartialEq, Eq)]
+pub enum Keyword {
+    Program,
+    EndProgram,
+    Function,
+    EndFunction,
+    FunctionBlock,
+    EndFunctionBlock,
+    Var,
+    VarInput,
+    VarOutput,
+    VarInOut,
+    VarGlobal,
+    VarTemp,
+    VarExternal,
+    Constant,
+    EndVar,
+    Array,
+    Of,
+    If,
+    Then,
+    Elsif,
+    Else,
+    EndIf,
+    Case,
+    EndCase,
+    For,
+    To,
+    By,
+    Do,
+    EndFor,
+    While,
+    EndWhile,
+    Repeat,
+    Until,
+    EndRepeat,
+    Return,
+    Exit,
+    Jmp,
+    Not,
+    And,
+    Or,
+    Xor,
+    Mod,
+    Type,
+    EndType,
+    Struct,
+    EndStruct,
+}
+
+fn keyword_from(word: &str) -> Option<Keyword> {
+    use Keyword::*;
+    Some(match word.to_ascii_uppercase().as_str() {
+        "PROGRAM" => Program,
+        "END_PROGRAM" => EndProgram,
+        "FUNCTION" => Function,
+        "END_FUNCTION" => EndFunction,
+        "FUNCTION_BLOCK" => FunctionBlock,
+        "END_FUNCTION_BLOCK" => EndFunctionBlock,
+        "VAR" => Var,
+        "VAR_INPUT" => VarInput,
+        "VAR_OUTPUT" => VarOutput,
+        "VAR_IN_OUT" => VarInOut,
+        "VAR_GLOBAL" => VarGlobal,
+        "VAR_TEMP" => VarTemp,
+        "VAR_EXTERNAL" => VarExternal,
+        "CONSTANT" => Constant,
+        "END_VAR" => EndVar,
+        "ARRAY" => Array,
+        "OF" => Of,
+        "IF" => If,
+        "THEN" => Then,
+        "ELSIF" => Elsif,
+        "ELSE" => Else,
+        "END_IF" => EndIf,
+        "CASE" => Case,
+        "END_CASE" => EndCase,
+        "FOR" => For,
+        "TO" => To,
+        "BY" => By,
+        "DO" => Do,
+        "END_FOR" => EndFor,
+        "WHILE" => While,
+        "END_WHILE" => EndWhile,
+        "REPEAT" => Repeat,
+        "UNTIL" => Until,
+        "END_REPEAT" => EndRepeat,
+        "RETURN" => Return,
+        "EXIT" => Exit,
+        "JMP" => Jmp,
+        "NOT" => Not,
+        "AND" => And,
+        "OR" => Or,
+        "XOR" => Xor,
+        "MOD" => Mod,
+        "TYPE" => Type,
+        "END_TYPE" => EndType,
+        "STRUCT" => Struct,
+        "END_STRUCT" => EndStruct,
+        _ => return None,
+    })
+}
+
+/// Tokenize `src`. Unknown characters are skipped (best-effort — a scanner must
+/// not die on odd input).
+pub fn lex(src: &str) -> Vec<Token> {
+    let chars: Vec<char> = src.chars().collect();
+    let mut i = 0usize;
+    let mut line = 1u32;
+    let mut out = Vec::new();
+
+    let bump_line = |c: char, line: &mut u32| {
+        if c == '\n' {
+            *line += 1;
+        }
+    };
+
+    while i < chars.len() {
+        let c = chars[i];
+
+        // Whitespace.
+        if c.is_whitespace() {
+            bump_line(c, &mut line);
+            i += 1;
+            continue;
+        }
+
+        // Line comment: //
+        if c == '/' && i + 1 < chars.len() && chars[i + 1] == '/' {
+            while i < chars.len() && chars[i] != '\n' {
+                i += 1;
+            }
+            continue;
+        }
+
+        // Block comment: (* ... *)
+        if c == '(' && i + 1 < chars.len() && chars[i + 1] == '*' {
+            i += 2;
+            while i + 1 < chars.len() && !(chars[i] == '*' && chars[i + 1] == ')') {
+                bump_line(chars[i], &mut line);
+                i += 1;
+            }
+            i = (i + 2).min(chars.len());
+            continue;
+        }
+
+        let tok_line = line;
+
+        // String literal: '...' or "..."
+        if c == '\'' || c == '"' {
+            let quote = c;
+            i += 1;
+            let mut s = String::new();
+            while i < chars.len() {
+                let ch = chars[i];
+                if ch == quote {
+                    // Doubled quote is an escaped quote.
+                    if i + 1 < chars.len() && chars[i + 1] == quote {
+                        s.push(quote);
+                        i += 2;
+                        continue;
+                    }
+                    i += 1;
+                    break;
+                }
+                bump_line(ch, &mut line);
+                s.push(ch);
+                i += 1;
+            }
+            out.push(Token {
+                kind: Tok::Str(s),
+                line: tok_line,
+            });
+            continue;
+        }
+
+        // Identifier / keyword / time literal / boolean.
+        if c.is_ascii_alphabetic() || c == '_' {
+            let start = i;
+            while i < chars.len() && (chars[i].is_ascii_alphanumeric() || chars[i] == '_') {
+                i += 1;
+            }
+            let word: String = chars[start..i].iter().collect();
+
+            // Duration/date/time literal prefix: T#, TIME#, DT#, D#, TOD#, LT# ...
+            if i < chars.len() && chars[i] == '#' {
+                let up = word.to_ascii_uppercase();
+                if matches!(
+                    up.as_str(),
+                    "T" | "TIME" | "DT" | "D" | "TOD" | "LT" | "DATE"
+                ) {
+                    let lit_start = start;
+                    i += 1; // consume '#'
+                    while i < chars.len()
+                        && (chars[i].is_ascii_alphanumeric()
+                            || chars[i] == '.'
+                            || chars[i] == '_'
+                            || chars[i] == ':')
+                    {
+                        i += 1;
+                    }
+                    let lit: String = chars[lit_start..i].iter().collect();
+                    out.push(Token {
+                        kind: Tok::Time(lit),
+                        line: tok_line,
+                    });
+                    continue;
+                }
+            }
+
+            let kind = match word.to_ascii_uppercase().as_str() {
+                "TRUE" => Tok::Bool(true),
+                "FALSE" => Tok::Bool(false),
+                _ => match keyword_from(&word) {
+                    Some(kw) => Tok::Kw(kw),
+                    None => Tok::Ident(word),
+                },
+            };
+            out.push(Token {
+                kind,
+                line: tok_line,
+            });
+            continue;
+        }
+
+        // Number: decimal, real, or based (16#..., 2#...).
+        if c.is_ascii_digit() {
+            let start = i;
+            while i < chars.len() && (chars[i].is_ascii_digit() || chars[i] == '_') {
+                i += 1;
+            }
+            // Based literal: <base>#<digits>
+            if i < chars.len() && chars[i] == '#' {
+                let base_str: String = chars[start..i].iter().filter(|c| **c != '_').collect();
+                i += 1;
+                let dstart = i;
+                while i < chars.len() && (chars[i].is_ascii_alphanumeric() || chars[i] == '_') {
+                    i += 1;
+                }
+                let digits: String = chars[dstart..i].iter().filter(|c| **c != '_').collect();
+                let radix = base_str.parse::<u32>().unwrap_or(10);
+                let val = i64::from_str_radix(&digits, radix.clamp(2, 36)).unwrap_or(0);
+                out.push(Token {
+                    kind: Tok::Int(val),
+                    line: tok_line,
+                });
+                continue;
+            }
+            // Real: has a '.' (not '..') or exponent.
+            let is_real =
+                i < chars.len() && chars[i] == '.' && !(i + 1 < chars.len() && chars[i + 1] == '.');
+            if is_real {
+                i += 1;
+                while i < chars.len() && (chars[i].is_ascii_digit() || chars[i] == '_') {
+                    i += 1;
+                }
+                let raw: String = chars[start..i].iter().filter(|c| **c != '_').collect();
+                out.push(Token {
+                    kind: Tok::Real(raw.parse().unwrap_or(0.0)),
+                    line: tok_line,
+                });
+                continue;
+            }
+            let raw: String = chars[start..i].iter().filter(|c| **c != '_').collect();
+            out.push(Token {
+                kind: Tok::Int(raw.parse().unwrap_or(0)),
+                line: tok_line,
+            });
+            continue;
+        }
+
+        // Operators / punctuation (longest match first).
+        let two: String = chars[i..(i + 2).min(chars.len())].iter().collect();
+        let kind = match two.as_str() {
+            ":=" => Some(Tok::Assign),
+            "<=" => Some(Tok::Le),
+            ">=" => Some(Tok::Ge),
+            "<>" => Some(Tok::Ne),
+            ".." => Some(Tok::DotDot),
+            "**" => Some(Tok::Power),
+            _ => None,
+        };
+        if let Some(k) = kind {
+            out.push(Token {
+                kind: k,
+                line: tok_line,
+            });
+            i += 2;
+            continue;
+        }
+        let one = match c {
+            '+' => Some(Tok::Plus),
+            '-' => Some(Tok::Minus),
+            '*' => Some(Tok::Star),
+            '/' => Some(Tok::Slash),
+            '(' => Some(Tok::LParen),
+            ')' => Some(Tok::RParen),
+            '[' => Some(Tok::LBrack),
+            ']' => Some(Tok::RBrack),
+            '.' => Some(Tok::Dot),
+            ',' => Some(Tok::Comma),
+            ';' => Some(Tok::Semi),
+            ':' => Some(Tok::Colon),
+            '<' => Some(Tok::Lt),
+            '>' => Some(Tok::Gt),
+            '=' => Some(Tok::Eq),
+            '&' => Some(Tok::Amp),
+            _ => None,
+        };
+        if let Some(k) = one {
+            out.push(Token {
+                kind: k,
+                line: tok_line,
+            });
+        }
+        i += 1;
+    }
+
+    out.push(Token {
+        kind: Tok::Eof,
+        line,
+    });
+    out
+}

compliance-agent/src/pipeline/plc/mod.rs

@@ -0,0 +1,234 @@
+//! PLC control-logic security scanner for IEC 61131-3 targets.
+//!
+//! Parses Structured Text (raw `.st`/`.scl`/`.exp` files and PLCopen-XML
+//! projects) into an AST and runs semantic control-logic security rules over it.
+//! Implements [`ScanType::PlcControlLogic`].
+
+pub mod ast;
+pub mod lexer;
+pub mod parser;
+pub mod plcopen;
+pub mod rules;
+pub mod sbom;
+
+use std::path::Path;
+
+use compliance_core::error::CoreError;
+use compliance_core::models::{Finding, ScanType};
+use compliance_core::traits::{ScanOutput, Scanner};
+
+use crate::pipeline::dedup;
+
+/// Scanner for `ScanType::PlcControlLogic`.
+pub struct PlcControlLogicScanner;
+
+impl Scanner for PlcControlLogicScanner {
+    fn name(&self) -> &str {
+        "plc-control-logic"
+    }
+
+    fn scan_type(&self) -> ScanType {
+        ScanType::PlcControlLogic
+    }
+
+    #[tracing::instrument(skip_all)]
+    async fn scan(&self, repo_path: &Path, repo_id: &str) -> Result<ScanOutput, CoreError> {
+        let findings = analyze_tree(repo_path, repo_id);
+        Ok(ScanOutput {
+            findings,
+            sbom_entries: Vec::new(),
+        })
+    }
+}
+
+/// Walk a PLC project tree and produce findings.
+pub(crate) fn analyze_tree(root: &Path, repo_id: &str) -> Vec<Finding> {
+    let mut findings = Vec::new();
+    for entry in walkdir::WalkDir::new(root)
+        .into_iter()
+        .filter_map(|e| e.ok())
+    {
+        if !entry.file_type().is_file() {
+            continue;
+        }
+        let path = entry.path();
+        let ext = path
+            .extension()
+            .and_then(|e| e.to_str())
+            .unwrap_or("")
+            .to_ascii_lowercase();
+        let is_st = matches!(ext.as_str(), "st" | "iecst" | "scl" | "exp" | "il");
+        let is_xml = matches!(ext.as_str(), "xml" | "plcopen" | "project");
+        if !is_st && !is_xml {
+            continue;
+        }
+        let Ok(content) = std::fs::read_to_string(path) else {
+            continue;
+        };
+        let pous = if is_xml {
+            plcopen::parse_plcopen(&content)
+        } else {
+            parser::parse(&content)
+        };
+        if pous.is_empty() {
+            continue;
+        }
+        let rel = path
+            .strip_prefix(root)
+            .unwrap_or(path)
+            .to_string_lossy()
+            .to_string();
+        for pou in &pous {
+            for hit in rules::analyze(pou) {
+                let line_s = hit.line.to_string();
+                let fingerprint =
+                    dedup::compute_fingerprint(&[repo_id, &rel, hit.rule_id, &pou.name, &line_s]);
+                let mut f = Finding::new(
+                    repo_id.to_string(),
+                    fingerprint,
+                    "plc-control-logic".to_string(),
+                    ScanType::PlcControlLogic,
+                    hit.title,
+                    hit.description,
+                    hit.severity,
+                );
+                f.file_path = Some(rel.clone());
+                f.line_number = Some(hit.line);
+                f.rule_id = Some(hit.rule_id.to_string());
+                f.cwe = hit.cwe.map(String::from);
+                f.remediation = Some(hit.remediation.to_string());
+                findings.push(f);
+            }
+        }
+    }
+    findings
+}
+
+#[cfg(test)]
+mod tests {
+    use super::*;
+    use std::collections::HashSet;
+    use std::path::PathBuf;
+
+    fn demo_dir() -> PathBuf {
+        PathBuf::from(env!("CARGO_MANIFEST_DIR"))
+            .parent()
+            .expect("workspace root")
+            .join("examples/plc-demo")
+    }
+
+    #[test]
+    fn scans_demo_project_end_to_end() {
+        let findings = analyze_tree(&demo_dir(), "demo-target");
+        assert!(!findings.is_empty(), "demo project should produce findings");
+
+        let rules: HashSet<&str> = findings
+            .iter()
+            .filter_map(|f| f.rule_id.as_deref())
+            .collect();
+        for r in [
+            "plc-hardcoded-credential",
+            "plc-default-password",
+            "plc-safety-bypass",
+            "plc-array-unchecked-index",
+            "plc-insecure-comm",
+            "plc-insecure-protocol-port",
+            "plc-unstructured-jump",
+            "plc-division-by-zero",
+        ] {
+            assert!(rules.contains(r), "expected rule {r}; got {rules:?}");
+        }
+
+        // Every finding is well-formed for storage.
+        for f in &findings {
+            assert_eq!(f.repo_id, "demo-target");
+            assert!(f.file_path.is_some(), "finding needs a file");
+            assert!(f.line_number.is_some(), "finding needs a line");
+        }
+
+        // The guarded division (IF ScaleFactor <> 0.0) must not be double-counted:
+        // exactly one division-by-zero (the unguarded MeasuredFlow divide).
+        let div0 = findings
+            .iter()
+            .filter(|f| f.rule_id.as_deref() == Some("plc-division-by-zero"))
+            .count();
+        assert_eq!(div0, 1, "only the unguarded division should be flagged");
+    }
+
+    /// The realistic OpenPLC-style traffic-light sample is mostly sound control
+    /// logic: the scanner must surface its few genuine defects and stay quiet on
+    /// the timed state machine and the guarded duty-cycle division.
+    #[test]
+    fn realistic_sample_flags_only_real_issues() {
+        let all = analyze_tree(&demo_dir(), "demo-target");
+        let tl: Vec<_> = all
+            .iter()
+            .filter(|f| {
+                f.file_path
+                    .as_deref()
+                    .is_some_and(|p| p.ends_with("traffic_light.st"))
+            })
+            .collect();
+        assert!(!tl.is_empty(), "traffic_light.st should produce findings");
+
+        let rules: HashSet<&str> = tl.iter().filter_map(|f| f.rule_id.as_deref()).collect();
+        // The three planted defects: hardcoded SCADA password, cleartext Modbus
+        // master (no auth), and a maintenance mode that drops the PedPermit.
+        for r in [
+            "plc-hardcoded-credential",
+            "plc-insecure-comm",
+            "plc-safety-bypass",
+        ] {
+            assert!(rules.contains(r), "expected rule {r}; got {rules:?}");
+        }
+        // Modbus/TCP on 502 is also an insecure-protocol port.
+        assert!(rules.contains("plc-insecure-protocol-port"));
+
+        // Low false positives: the guarded `IF LampCount <> 0` division and the
+        // JMP-free state machine must not trip anything.
+        assert_eq!(
+            tl.iter()
+                .filter(|f| f.rule_id.as_deref() == Some("plc-division-by-zero"))
+                .count(),
+            0,
+            "the guarded duty-cycle division must not be flagged"
+        );
+        assert!(
+            !rules.contains("plc-unstructured-jump"),
+            "the CASE state machine uses no JMP"
+        );
+    }
+
+    /// Graphical logic must be analysed too: an FBD POU (blocks + in/out
+    /// variables) is translated to synthetic ST, so the same rules fire on the
+    /// cleartext Modbus block, the hardcoded HMI password and the safety write.
+    #[test]
+    fn fbd_graphical_body_is_analysed() {
+        let all = analyze_tree(&demo_dir(), "demo-target");
+        let fbd: Vec<_> = all
+            .iter()
+            .filter(|f| {
+                f.file_path
+                    .as_deref()
+                    .is_some_and(|p| p.ends_with("pump_fbd.xml"))
+            })
+            .collect();
+        assert!(
+            !fbd.is_empty(),
+            "pump_fbd.xml (FBD) should produce findings"
+        );
+
+        let rules: HashSet<&str> = fbd.iter().filter_map(|f| f.rule_id.as_deref()).collect();
+        for r in [
+            "plc-insecure-comm",          // Modbus_TCP_Master(AUTH := FALSE)
+            "plc-insecure-protocol-port", // PORT := 502
+            "plc-hardcoded-credential",   // HmiPassword := 'admin123'
+            "plc-safety-bypass",          // Safety_Enable := FALSE
+        ] {
+            assert!(
+                rules.contains(r),
+                "expected rule {r} from FBD; got {rules:?}"
+            );
+        }
+    }
+}

compliance-agent/src/pipeline/plc/parser.rs

@@ -0,0 +1,766 @@
+//! Recursive-descent parser for the security-relevant subset of Structured Text.
+//!
+//! Tolerant by design: it parses the POUs, variable sections, and statement
+//! bodies it understands, and skips (with statement/POU-level recovery) anything
+//! it does not, so a single odd construct never sinks the whole file.
+
+use super::ast::*;
+use super::lexer::{Keyword as K, Tok, Token};
+
+pub struct Parser {
+    toks: Vec<Token>,
+    pos: usize,
+}
+
+impl Parser {
+    pub fn new(toks: Vec<Token>) -> Self {
+        Self { toks, pos: 0 }
+    }
+
+    // ── token helpers ──────────────────────────────────────────────
+    fn peek(&self) -> &Tok {
+        &self.toks[self.pos.min(self.toks.len() - 1)].kind
+    }
+    fn line(&self) -> u32 {
+        self.toks[self.pos.min(self.toks.len() - 1)].line
+    }
+    fn at_end(&self) -> bool {
+        matches!(self.peek(), Tok::Eof)
+    }
+    fn advance(&mut self) -> Tok {
+        let t = self.toks[self.pos.min(self.toks.len() - 1)].kind.clone();
+        if self.pos < self.toks.len() - 1 {
+            self.pos += 1;
+        }
+        t
+    }
+    fn eat(&mut self, t: &Tok) -> bool {
+        if self.peek() == t {
+            self.advance();
+            true
+        } else {
+            false
+        }
+    }
+    fn eat_kw(&mut self, k: K) -> bool {
+        if matches!(self.peek(), Tok::Kw(x) if *x == k) {
+            self.advance();
+            true
+        } else {
+            false
+        }
+    }
+    fn at_kw(&self, k: K) -> bool {
+        matches!(self.peek(), Tok::Kw(x) if *x == k)
+    }
+    fn ident(&mut self) -> Option<String> {
+        if let Tok::Ident(s) = self.peek() {
+            let s = s.clone();
+            self.advance();
+            Some(s)
+        } else {
+            None
+        }
+    }
+
+    // ── top level ──────────────────────────────────────────────────
+    /// Parse every POU in the token stream.
+    pub fn parse_units(&mut self) -> Vec<Pou> {
+        let mut pous = Vec::new();
+        while !self.at_end() {
+            match self.peek() {
+                Tok::Kw(K::Program) => {
+                    self.advance();
+                    if let Some(p) = self.parse_pou(PouKind::Program, K::EndProgram) {
+                        pous.push(p);
+                    }
+                }
+                Tok::Kw(K::Function) => {
+                    self.advance();
+                    if let Some(p) = self.parse_pou(PouKind::Function, K::EndFunction) {
+                        pous.push(p);
+                    }
+                }
+                Tok::Kw(K::FunctionBlock) => {
+                    self.advance();
+                    if let Some(p) = self.parse_pou(PouKind::FunctionBlock, K::EndFunctionBlock) {
+                        pous.push(p);
+                    }
+                }
+                // Skip TYPE...END_TYPE and anything else at top level.
+                _ => {
+                    self.advance();
+                }
+            }
+        }
+        pous
+    }
+
+    fn parse_pou(&mut self, kind: PouKind, end: K) -> Option<Pou> {
+        let line = self.line();
+        let name = self.ident().unwrap_or_else(|| "<anonymous>".to_string());
+        // Optional `: return_type` for functions.
+        if self.eat(&Tok::Colon) {
+            let _ = self.advance(); // return type token
+        }
+
+        let mut vars = Vec::new();
+        // Variable sections precede the body.
+        while let Some(section) = self.var_section_kw() {
+            self.advance();
+            let _ = self.eat_kw(K::Constant); // CONSTANT is informational for our rules
+            self.parse_var_decls(section, &mut vars);
+        }
+
+        // Body statements until END_<kind>.
+        let mut body = Vec::new();
+        while !self.at_end() && !self.at_kw(end) {
+            if let Some(s) = self.parse_stmt() {
+                body.push(s);
+            }
+        }
+        self.eat_kw(end);
+
+        Some(Pou {
+            name,
+            kind,
+            vars,
+            body,
+            line,
+        })
+    }
+
+    fn var_section_kw(&self) -> Option<VarSection> {
+        match self.peek() {
+            Tok::Kw(K::Var) => Some(VarSection::Var),
+            Tok::Kw(K::VarInput) => Some(VarSection::Input),
+            Tok::Kw(K::VarOutput) => Some(VarSection::Output),
+            Tok::Kw(K::VarInOut) => Some(VarSection::InOut),
+            Tok::Kw(K::VarGlobal) => Some(VarSection::Global),
+            Tok::Kw(K::VarTemp) => Some(VarSection::Temp),
+            Tok::Kw(K::VarExternal) => Some(VarSection::External),
+            _ => None,
+        }
+    }
+
+    fn parse_var_decls(&mut self, section: VarSection, out: &mut Vec<VarDecl>) {
+        while !self.at_end() && !self.at_kw(K::EndVar) {
+            let line = self.line();
+            // names: a, b, c
+            let mut names = Vec::new();
+            match self.ident() {
+                Some(n) => names.push(n),
+                None => {
+                    // Not a declaration we understand — skip to next ; or END_VAR.
+                    self.sync_decl();
+                    continue;
+                }
+            }
+            while self.eat(&Tok::Comma) {
+                if let Some(n) = self.ident() {
+                    names.push(n);
+                }
+            }
+            if !self.eat(&Tok::Colon) {
+                self.sync_decl();
+                continue;
+            }
+            let (type_name, array_bounds) = self.parse_type();
+            let init = if self.eat(&Tok::Assign) {
+                Some(self.parse_expr())
+            } else {
+                None
+            };
+            self.eat(&Tok::Semi);
+            for n in names {
+                out.push(VarDecl {
+                    name: n,
+                    section,
+                    type_name: type_name.clone(),
+                    array_bounds,
+                    init: init.clone(),
+                    line,
+                });
+            }
+        }
+        self.eat_kw(K::EndVar);
+    }
+
+    /// Parse a (possibly ARRAY) type, returning its rendered name and literal
+    /// bounds when present.
+    fn parse_type(&mut self) -> (String, Option<(i64, i64)>) {
+        if self.eat_kw(K::Array) {
+            let mut bounds = None;
+            if self.eat(&Tok::LBrack) {
+                let lo = self.int_lit();
+                self.eat(&Tok::DotDot);
+                let hi = self.int_lit();
+                if let (Some(lo), Some(hi)) = (lo, hi) {
+                    bounds = Some((lo, hi));
+                }
+                // Skip any further dimensions / tokens to the closing bracket.
+                while !self.at_end() && !self.eat(&Tok::RBrack) {
+                    self.advance();
+                }
+            }
+            self.eat_kw(K::Of);
+            let elem = self.type_ident();
+            (format!("ARRAY OF {elem}"), bounds)
+        } else {
+            (self.type_ident(), None)
+        }
+    }
+
+    fn type_ident(&mut self) -> String {
+        // Types can be qualified idents; keep it simple: one token, plus any
+        // string-length suffix like STRING[80].
+        let base = match self.advance() {
+            Tok::Ident(s) => s,
+            Tok::Kw(_) => "TYPE".to_string(),
+            other => format!("{other:?}"),
+        };
+        if self.eat(&Tok::LBrack) {
+            while !self.at_end() && !self.eat(&Tok::RBrack) {
+                self.advance();
+            }
+        }
+        base
+    }
+
+    fn int_lit(&mut self) -> Option<i64> {
+        match self.peek() {
+            Tok::Int(n) => {
+                let n = *n;
+                self.advance();
+                Some(n)
+            }
+            Tok::Minus => {
+                self.advance();
+                if let Tok::Int(n) = self.peek() {
+                    let n = -*n;
+                    self.advance();
+                    Some(n)
+                } else {
+                    None
+                }
+            }
+            _ => None,
+        }
+    }
+
+    fn sync_decl(&mut self) {
+        while !self.at_end() && !self.eat(&Tok::Semi) && !self.at_kw(K::EndVar) {
+            self.advance();
+        }
+    }
+    fn sync_stmt(&mut self) {
+        while !self.at_end() && !self.eat(&Tok::Semi) {
+            // Stop at block terminators so recovery doesn't swallow structure.
+            if matches!(
+                self.peek(),
+                Tok::Kw(
+                    K::EndIf
+                        | K::EndFor
+                        | K::EndWhile
+                        | K::EndCase
+                        | K::EndRepeat
+                        | K::EndProgram
+                        | K::EndFunction
+                        | K::EndFunctionBlock
+                        | K::Else
+                        | K::Elsif
+                )
+            ) {
+                return;
+            }
+            self.advance();
+        }
+    }
+
+    // ── statements ─────────────────────────────────────────────────
+    fn parse_stmt(&mut self) -> Option<Stmt> {
+        let line = self.line();
+        match self.peek().clone() {
+            Tok::Semi => {
+                self.advance();
+                None
+            }
+            Tok::Kw(K::If) => self.parse_if(),
+            Tok::Kw(K::Case) => self.parse_case(),
+            Tok::Kw(K::For) => self.parse_for(),
+            Tok::Kw(K::While) => self.parse_while(),
+            Tok::Kw(K::Repeat) => self.parse_repeat(),
+            Tok::Kw(K::Return) => {
+                self.advance();
+                self.eat(&Tok::Semi);
+                Some(Stmt::Return { line })
+            }
+            Tok::Kw(K::Exit) => {
+                self.advance();
+                self.eat(&Tok::Semi);
+                Some(Stmt::Exit { line })
+            }
+            Tok::Kw(K::Jmp) => {
+                self.advance();
+                let label = self.ident().unwrap_or_default();
+                self.eat(&Tok::Semi);
+                Some(Stmt::Jump { label, line })
+            }
+            Tok::Ident(name) => {
+                // Could be `label:`, `call(...)`, or an assignment.
+                // Lookahead: ident ':' (not ':=') → label.
+                if matches!(
+                    self.toks.get(self.pos + 1).map(|t| &t.kind),
+                    Some(Tok::Colon)
+                ) && !matches!(self.toks.get(self.pos + 2).map(|t| &t.kind), Some(Tok::Eq))
+                {
+                    self.advance(); // ident
+                    self.advance(); // ':'
+                    return Some(Stmt::Label { name, line });
+                }
+                let lhs = self.parse_expr();
+                if self.eat(&Tok::Assign) {
+                    let value = self.parse_expr();
+                    self.eat(&Tok::Semi);
+                    Some(Stmt::Assign {
+                        target: lhs,
+                        value,
+                        line,
+                    })
+                } else if let Expr::Call { callee, args, .. } = lhs {
+                    self.eat(&Tok::Semi);
+                    Some(Stmt::Call { callee, args, line })
+                } else {
+                    // Bare expression / FB invocation without args recognized —
+                    // skip to the terminator.
+                    self.sync_stmt();
+                    None
+                }
+            }
+            _ => {
+                self.sync_stmt();
+                None
+            }
+        }
+    }
+
+    fn parse_block_until(&mut self, terms: &[K]) -> Vec<Stmt> {
+        let mut body = Vec::new();
+        while !self.at_end() && !terms.iter().any(|k| self.at_kw(*k)) {
+            if let Some(s) = self.parse_stmt() {
+                body.push(s);
+            }
+        }
+        body
+    }
+
+    fn parse_if(&mut self) -> Option<Stmt> {
+        let line = self.line();
+        self.eat_kw(K::If);
+        let mut branches = Vec::new();
+        let cond = self.parse_expr();
+        self.eat_kw(K::Then);
+        let body = self.parse_block_until(&[K::Elsif, K::Else, K::EndIf]);
+        branches.push((cond, body));
+        while self.eat_kw(K::Elsif) {
+            let c = self.parse_expr();
+            self.eat_kw(K::Then);
+            let b = self.parse_block_until(&[K::Elsif, K::Else, K::EndIf]);
+            branches.push((c, b));
+        }
+        let else_body = if self.eat_kw(K::Else) {
+            Some(self.parse_block_until(&[K::EndIf]))
+        } else {
+            None
+        };
+        self.eat_kw(K::EndIf);
+        self.eat(&Tok::Semi);
+        Some(Stmt::If {
+            branches,
+            else_body,
+            line,
+        })
+    }
+
+    fn parse_case(&mut self) -> Option<Stmt> {
+        let line = self.line();
+        self.eat_kw(K::Case);
+        let selector = self.parse_expr();
+        self.eat_kw(K::Of);
+        let mut arms = Vec::new();
+        let mut else_body = None;
+        while !self.at_end() && !self.at_kw(K::EndCase) {
+            if self.eat_kw(K::Else) {
+                else_body = Some(self.parse_block_until(&[K::EndCase]));
+                break;
+            }
+            // labels: expr {, expr} :
+            let mut labels = vec![self.parse_expr()];
+            while self.eat(&Tok::Comma) {
+                labels.push(self.parse_expr());
+            }
+            self.eat(&Tok::Colon);
+            let body = self.parse_block_until(&[K::EndCase, K::Else]);
+            arms.push((labels, body));
+        }
+        self.eat_kw(K::EndCase);
+        self.eat(&Tok::Semi);
+        Some(Stmt::Case {
+            selector,
+            arms,
+            else_body,
+            line,
+        })
+    }
+
+    fn parse_for(&mut self) -> Option<Stmt> {
+        let line = self.line();
+        self.eat_kw(K::For);
+        let var = self.ident().unwrap_or_default();
+        self.eat(&Tok::Assign);
+        let from = self.parse_expr();
+        self.eat_kw(K::To);
+        let to = self.parse_expr();
+        let by = if self.eat_kw(K::By) {
+            Some(self.parse_expr())
+        } else {
+            None
+        };
+        self.eat_kw(K::Do);
+        let body = self.parse_block_until(&[K::EndFor]);
+        self.eat_kw(K::EndFor);
+        self.eat(&Tok::Semi);
+        Some(Stmt::For {
+            var,
+            from,
+            to,
+            by,
+            body,
+            line,
+        })
+    }
+
+    fn parse_while(&mut self) -> Option<Stmt> {
+        let line = self.line();
+        self.eat_kw(K::While);
+        let cond = self.parse_expr();
+        self.eat_kw(K::Do);
+        let body = self.parse_block_until(&[K::EndWhile]);
+        self.eat_kw(K::EndWhile);
+        self.eat(&Tok::Semi);
+        Some(Stmt::While { cond, body, line })
+    }
+
+    fn parse_repeat(&mut self) -> Option<Stmt> {
+        let line = self.line();
+        self.eat_kw(K::Repeat);
+        let body = self.parse_block_until(&[K::Until, K::EndRepeat]);
+        self.eat_kw(K::Until);
+        let until = self.parse_expr();
+        self.eat_kw(K::EndRepeat);
+        self.eat(&Tok::Semi);
+        Some(Stmt::Repeat { body, until, line })
+    }
+
+    // ── expressions (precedence climbing) ──────────────────────────
+    pub fn parse_expr(&mut self) -> Expr {
+        self.parse_or()
+    }
+
+    fn parse_or(&mut self) -> Expr {
+        let mut lhs = self.parse_and();
+        loop {
+            let op = match self.peek() {
+                Tok::Kw(K::Or) => BinOp::Or,
+                Tok::Kw(K::Xor) => BinOp::Xor,
+                _ => break,
+            };
+            let line = self.line();
+            self.advance();
+            let rhs = self.parse_and();
+            lhs = Expr::Binary {
+                op,
+                lhs: Box::new(lhs),
+                rhs: Box::new(rhs),
+                line,
+            };
+        }
+        lhs
+    }
+
+    fn parse_and(&mut self) -> Expr {
+        let mut lhs = self.parse_cmp();
+        while matches!(self.peek(), Tok::Kw(K::And) | Tok::Amp) {
+            let op = BinOp::And;
+            let line = self.line();
+            self.advance();
+            let rhs = self.parse_cmp();
+            lhs = Expr::Binary {
+                op,
+                lhs: Box::new(lhs),
+                rhs: Box::new(rhs),
+                line,
+            };
+        }
+        lhs
+    }
+
+    fn parse_cmp(&mut self) -> Expr {
+        let mut lhs = self.parse_add();
+        loop {
+            let op = match self.peek() {
+                Tok::Eq => BinOp::Eq,
+                Tok::Ne => BinOp::Ne,
+                Tok::Lt => BinOp::Lt,
+                Tok::Le => BinOp::Le,
+                Tok::Gt => BinOp::Gt,
+                Tok::Ge => BinOp::Ge,
+                _ => break,
+            };
+            let line = self.line();
+            self.advance();
+            let rhs = self.parse_add();
+            lhs = Expr::Binary {
+                op,
+                lhs: Box::new(lhs),
+                rhs: Box::new(rhs),
+                line,
+            };
+        }
+        lhs
+    }
+
+    fn parse_add(&mut self) -> Expr {
+        let mut lhs = self.parse_mul();
+        loop {
+            let op = match self.peek() {
+                Tok::Plus => BinOp::Add,
+                Tok::Minus => BinOp::Sub,
+                _ => break,
+            };
+            let line = self.line();
+            self.advance();
+            let rhs = self.parse_mul();
+            lhs = Expr::Binary {
+                op,
+                lhs: Box::new(lhs),
+                rhs: Box::new(rhs),
+                line,
+            };
+        }
+        lhs
+    }
+
+    fn parse_mul(&mut self) -> Expr {
+        let mut lhs = self.parse_unary();
+        loop {
+            let op = match self.peek() {
+                Tok::Star => BinOp::Mul,
+                Tok::Slash => BinOp::Div,
+                Tok::Kw(K::Mod) => BinOp::Mod,
+                Tok::Power => BinOp::Pow,
+                _ => break,
+            };
+            let line = self.line();
+            self.advance();
+            let rhs = self.parse_unary();
+            lhs = Expr::Binary {
+                op,
+                lhs: Box::new(lhs),
+                rhs: Box::new(rhs),
+                line,
+            };
+        }
+        lhs
+    }
+
+    fn parse_unary(&mut self) -> Expr {
+        let line = self.line();
+        match self.peek() {
+            Tok::Kw(K::Not) => {
+                self.advance();
+                Expr::Unary {
+                    op: UnOp::Not,
+                    expr: Box::new(self.parse_unary()),
+                    line,
+                }
+            }
+            Tok::Minus => {
+                self.advance();
+                Expr::Unary {
+                    op: UnOp::Neg,
+                    expr: Box::new(self.parse_unary()),
+                    line,
+                }
+            }
+            _ => self.parse_postfix(),
+        }
+    }
+
+    fn parse_postfix(&mut self) -> Expr {
+        let mut e = self.parse_primary();
+        loop {
+            let line = self.line();
+            match self.peek() {
+                Tok::LBrack => {
+                    self.advance();
+                    let index = self.parse_expr();
+                    self.eat(&Tok::RBrack);
+                    e = Expr::Index {
+                        base: Box::new(e),
+                        index: Box::new(index),
+                        line,
+                    };
+                }
+                Tok::Dot => {
+                    self.advance();
+                    let field = self.ident().unwrap_or_default();
+                    e = Expr::Member {
+                        base: Box::new(e),
+                        field,
+                        line,
+                    };
+                }
+                _ => break,
+            }
+        }
+        e
+    }
+
+    fn parse_primary(&mut self) -> Expr {
+        let line = self.line();
+        match self.advance() {
+            Tok::Int(n) => Expr::Int(n, line),
+            Tok::Real(r) => Expr::Real(r, line),
+            Tok::Bool(b) => Expr::Bool(b, line),
+            Tok::Str(s) => Expr::Str(s, line),
+            Tok::Time(t) => Expr::Time(t, line),
+            Tok::LParen => {
+                let e = self.parse_expr();
+                self.eat(&Tok::RParen);
+                e
+            }
+            Tok::Ident(name) => {
+                if self.eat(&Tok::LParen) {
+                    let args = self.parse_call_args();
+                    Expr::Call {
+                        callee: name,
+                        args,
+                        line,
+                    }
+                } else {
+                    Expr::Ident(name, line)
+                }
+            }
+            // Unrecognized start of expression — yield a placeholder identifier.
+            _ => Expr::Ident(String::new(), line),
+        }
+    }
+
+    fn parse_call_args(&mut self) -> Vec<CallArg> {
+        let mut args = Vec::new();
+        if self.eat(&Tok::RParen) {
+            return args;
+        }
+        loop {
+            // Named arg: ident := expr  (peek two tokens).
+            if let Tok::Ident(name) = self.peek().clone() {
+                if matches!(
+                    self.toks.get(self.pos + 1).map(|t| &t.kind),
+                    Some(Tok::Assign)
+                ) {
+                    self.advance(); // ident
+                    self.advance(); // :=
+                    let value = self.parse_expr();
+                    args.push(CallArg {
+                        name: Some(name),
+                        value,
+                    });
+                    if self.eat(&Tok::Comma) {
+                        continue;
+                    }
+                    break;
+                }
+            }
+            let value = self.parse_expr();
+            args.push(CallArg { name: None, value });
+            if self.eat(&Tok::Comma) {
+                continue;
+            }
+            break;
+        }
+        self.eat(&Tok::RParen);
+        args
+    }
+}
+
+/// Parse ST source into its POUs.
+pub fn parse(src: &str) -> Vec<Pou> {
+    let toks = super::lexer::lex(src);
+    Parser::new(toks).parse_units()
+}
+
+#[cfg(test)]
+mod tests {
+    use super::*;
+
+    const SAMPLE: &str = r#"
+PROGRAM Main
+VAR
+    idx : INT;
+    pw : STRING := 'admin123';
+    buf : ARRAY[0..9] OF INT;
+    ok : BOOL := FALSE;
+END_VAR
+    // a comment
+    IF idx > 0 THEN
+        buf[idx] := idx * 2;
+    ELSE
+        JMP done;
+    END_IF;
+    Comm(IP := '10.0.0.1', PORT := 502);
+done:
+    ok := TRUE;
+END_PROGRAM
+"#;
+
+    #[test]
+    fn parses_program_vars_and_body() {
+        let pous = parse(SAMPLE);
+        assert_eq!(pous.len(), 1, "one POU");
+        let p = &pous[0];
+        assert_eq!(p.name, "Main");
+        assert_eq!(p.kind, PouKind::Program);
+        // vars: idx, pw, buf, ok
+        assert_eq!(p.vars.len(), 4);
+        let pw = p.vars.iter().find(|v| v.name == "pw").expect("pw");
+        assert!(matches!(&pw.init, Some(Expr::Str(s, _)) if s == "admin123"));
+        let buf = p.vars.iter().find(|v| v.name == "buf").expect("buf");
+        assert_eq!(buf.array_bounds, Some((0, 9)));
+        // body has an IF, a Call, a Label, and an Assign
+        assert!(p.body.iter().any(|s| matches!(s, Stmt::If { .. })));
+        assert!(p
+            .body
+            .iter()
+            .any(|s| matches!(s, Stmt::Call { callee, .. } if callee == "Comm")));
+        assert!(p
+            .body
+            .iter()
+            .any(|s| matches!(s, Stmt::Label { name, .. } if name == "done")));
+    }
+
+    #[test]
+    fn jmp_inside_if_is_captured() {
+        let pous = parse(SAMPLE);
+        let p = &pous[0];
+        // find the IF, check its else branch has a JMP
+        let has_jmp = p.body.iter().any(|s| match s {
+            Stmt::If { else_body, .. } => else_body
+                .as_ref()
+                .map(|b| b.iter().any(|s| matches!(s, Stmt::Jump { .. })))
+                .unwrap_or(false),
+            _ => false,
+        });
+        assert!(has_jmp, "JMP should be parsed inside the ELSE branch");
+    }
+}

compliance-agent/src/pipeline/plc/plcopen.rs

@@ -0,0 +1,418 @@
+//! PLCopen XML → Structured Text POUs.
+//!
+//! A PLCopen project stores each POU as `<pou name=".." pouType="..">` with an
+//! `<interface>` (typed variable sections) and a `<body>` in one of the IEC
+//! 61131-3 languages. We reconstruct an equivalent Structured-Text source for
+//! each POU (a `VAR` block from the interface + statements from the body) and run
+//! it through the ST parser, so raw `.st` files and PLCopen projects — textual or
+//! graphical — flow through one analysis path.
+//!
+//! Body languages:
+//! - **ST** — taken verbatim.
+//! - **FBD / LD** — the graphical network is translated to synthetic ST: blocks
+//!   become calls (`TypeName(pin := arg, …)`), out-variables / coils become
+//!   assignments, with input pins resolved by tracing connections. This lets the
+//!   semantic rules see comm calls, hardcoded arguments and safety writes that
+//!   live in graphical logic, not just in text.
+//! - **SFC** — the step/transition graph itself is skipped; the ST/FBD/LD bodies
+//!   embedded in its actions and transitions are still translated.
+
+use std::collections::HashMap;
+
+use roxmltree::Node;
+
+use super::ast::Pou;
+use super::parser;
+
+/// Parse every POU out of a PLCopen XML document (ST, FBD or LD bodies).
+pub fn parse_plcopen(xml: &str) -> Vec<Pou> {
+    let doc = match roxmltree::Document::parse(xml) {
+        Ok(d) => d,
+        Err(_) => return Vec::new(),
+    };
+    let mut pous = Vec::new();
+    for pou in doc.descendants().filter(|n| n.has_tag_name("pou")) {
+        let name = pou.attribute("name").unwrap_or("pou").to_string();
+        let pou_type = pou.attribute("pouType").unwrap_or("program");
+
+        let Some(body) = reconstruct_body(pou) else {
+            continue;
+        };
+        if body.trim().is_empty() {
+            continue;
+        }
+
+        let var_block = build_var_block(pou);
+        let kw = match pou_type.to_ascii_lowercase().as_str() {
+            "function" => "FUNCTION",
+            "functionblock" | "functionblocktype" => "FUNCTION_BLOCK",
+            _ => "PROGRAM",
+        };
+        let synthetic = format!("{kw} {name}\n{var_block}{body}\nEND_{kw}\n");
+        pous.extend(parser::parse(&synthetic));
+    }
+    pous
+}
+
+/// Case-insensitive tag match (PLCopen uses `FBD`/`LD`/`ST`, CODESYS may vary).
+fn tag_is(n: &Node, name: &str) -> bool {
+    n.tag_name().name().eq_ignore_ascii_case(name)
+}
+
+/// Reconstruct a POU's body as Structured Text, whatever language it is written
+/// in. Concatenates every language body found under `<body>` (SFC actions and
+/// transitions carry their own ST/FBD/LD sub-bodies).
+fn reconstruct_body(pou: Node) -> Option<String> {
+    let mut out = String::new();
+    for body in pou.descendants().filter(|n| tag_is(n, "body")) {
+        for lang in body.children().filter(|n| n.is_element()) {
+            let piece = match lang.tag_name().name().to_ascii_uppercase().as_str() {
+                "ST" | "IL" => collect_text(lang),
+                "FBD" | "LD" => translate_network(lang),
+                _ => continue,
+            };
+            if !piece.trim().is_empty() {
+                out.push_str(&piece);
+                if !piece.ends_with('\n') {
+                    out.push('\n');
+                }
+            }
+        }
+    }
+    if out.trim().is_empty() {
+        None
+    } else {
+        Some(out)
+    }
+}
+
+// ── graphical (FBD / LD) → synthetic ST ────────────────────────────────
+
+/// Translate one FBD/LD network into ST statements: blocks → calls,
+/// out-variables and coils → assignments.
+fn translate_network(net: Node) -> String {
+    let by_id = index_local_ids(net);
+    let mut out = String::new();
+    for el in net.children().filter(|n| n.is_element()) {
+        let stmt = match el.tag_name().name().to_ascii_lowercase().as_str() {
+            "block" => block_call(el, &by_id).map(|c| format!("{c};")),
+            "outvariable" => out_assignment(el, &by_id),
+            "coil" => coil_assignment(el, &by_id),
+            _ => None,
+        };
+        if let Some(s) = stmt {
+            out.push_str(&s);
+            out.push('\n');
+        }
+    }
+    out
+}
+
+/// Index every element in a network by its `localId` so connections resolve.
+fn index_local_ids<'a, 'input>(net: Node<'a, 'input>) -> HashMap<String, Node<'a, 'input>> {
+    net.descendants()
+        .filter(|n| n.is_element())
+        .filter_map(|n| n.attribute("localId").map(|id| (id.to_string(), n)))
+        .collect()
+}
+
+/// Build a call expression for a block: `TypeName(pin := arg, …)`.
+fn block_call(block: Node, by_id: &HashMap<String, Node>) -> Option<String> {
+    let ty = block.attribute("typeName")?;
+    let mut args = Vec::new();
+    if let Some(inputs) = block.children().find(|n| tag_is(n, "inputVariables")) {
+        for v in inputs.children().filter(|n| tag_is(n, "variable")) {
+            let Some(expr) = input_expr(v, by_id, 0) else {
+                continue;
+            };
+            match v.attribute("formalParameter") {
+                Some(pin) if !pin.is_empty() => args.push(format!("{pin} := {expr}")),
+                _ => args.push(expr),
+            }
+        }
+    }
+    Some(format!("{ty}({})", args.join(", ")))
+}
+
+/// `target := <traced expression>;` for an FBD out-variable.
+fn out_assignment(outvar: Node, by_id: &HashMap<String, Node>) -> Option<String> {
+    let target = expression_text(outvar)?;
+    let value = input_expr(outvar, by_id, 0).unwrap_or_else(|| "0".to_string());
+    Some(format!("{target} := {value};"))
+}
+
+/// `coil := <traced rung expression>;` for an LD coil (negated → `NOT (…)`).
+fn coil_assignment(coil: Node, by_id: &HashMap<String, Node>) -> Option<String> {
+    let target = child_text(coil, "variable")?;
+    let rung = input_expr(coil, by_id, 0).unwrap_or_else(|| "TRUE".to_string());
+    let negated = matches!(coil.attribute("negated"), Some(v) if v.eq_ignore_ascii_case("true"));
+    let rhs = if negated {
+        format!("NOT ({rung})")
+    } else {
+        rung
+    };
+    Some(format!("{target} := {rhs};"))
+}
+
+/// Resolve the expression feeding `node`'s single input connection.
+fn input_expr(node: Node, by_id: &HashMap<String, Node>, depth: u8) -> Option<String> {
+    let refid = ref_local_id(node)?;
+    Some(expr_for(&refid, by_id, depth))
+}
+
+/// Build the ST expression produced by the element with this `localId`.
+fn expr_for(local_id: &str, by_id: &HashMap<String, Node>, depth: u8) -> String {
+    if depth > 24 {
+        return "0".to_string();
+    }
+    let Some(node) = by_id.get(local_id) else {
+        return format!("__net{local_id}");
+    };
+    match node.tag_name().name().to_ascii_lowercase().as_str() {
+        "invariable" | "inoutvariable" => {
+            expression_text(*node).unwrap_or_else(|| format!("__net{local_id}"))
+        }
+        // A block feeding another element: reference it by a synthetic result
+        // name; the block is emitted as its own call statement, so we neither
+        // duplicate the call nor lose it.
+        "block" => format!("__blk{local_id}"),
+        "contact" => {
+            let var = child_text(*node, "variable").unwrap_or_else(|| "TRUE".to_string());
+            let negated =
+                matches!(node.attribute("negated"), Some(v) if v.eq_ignore_ascii_case("true"));
+            let term = if negated { format!("NOT {var}") } else { var };
+            match ref_local_id(*node) {
+                Some(up) => {
+                    let upstream = expr_for(&up, by_id, depth + 1);
+                    if upstream == "TRUE" {
+                        term
+                    } else {
+                        format!("({upstream} AND {term})")
+                    }
+                }
+                None => term,
+            }
+        }
+        "leftpowerrail" => "TRUE".to_string(),
+        _ => format!("__net{local_id}"),
+    }
+}
+
+/// The `refLocalId` of `node`'s first input connection, if any.
+fn ref_local_id(node: Node) -> Option<String> {
+    node.descendants()
+        .find(|n| tag_is(n, "connectionPointIn"))
+        .and_then(|cpi| cpi.descendants().find(|n| tag_is(n, "connection")))
+        .and_then(|c| c.attribute("refLocalId"))
+        .map(|s| s.to_string())
+}
+
+/// Text of a node's `<expression>` child (variable name or literal).
+fn expression_text(node: Node) -> Option<String> {
+    let e = node.children().find(|n| tag_is(n, "expression"))?;
+    let t = collect_text(e).trim().to_string();
+    if t.is_empty() {
+        None
+    } else {
+        Some(t)
+    }
+}
+
+/// Text of a named child element (e.g. `<variable>` of a contact/coil).
+fn child_text(node: Node, name: &str) -> Option<String> {
+    let c = node.children().find(|n| tag_is(n, name))?;
+    let t = collect_text(c).trim().to_string();
+    if t.is_empty() {
+        None
+    } else {
+        Some(t)
+    }
+}
+
+/// Concatenate the text of a node's descendant text nodes (bodies are often
+/// wrapped in `<xhtml>` and may contain multiple text runs). Only text nodes are
+/// gathered: an element's `.text()` would re-yield its first child's text, which
+/// (with the text node itself) would duplicate every value.
+fn collect_text(node: Node) -> String {
+    node.descendants()
+        .filter(|n| n.is_text())
+        .filter_map(|n| n.text())
+        .collect::<String>()
+}
+
+/// Build an ST `VAR … END_VAR` block from a POU's `<interface>` variable
+/// sections, so declarations (types, initial values) reach the rules.
+fn build_var_block(pou: Node) -> String {
+    let Some(interface) = pou.children().find(|n| n.has_tag_name("interface")) else {
+        return String::new();
+    };
+    let mut out = String::from("VAR\n");
+    let mut any = false;
+    for container in interface.children().filter(|n| n.is_element()) {
+        // localVars / inputVars / outputVars / inOutVars / tempVars / globalVars / externalVars
+        if !container.tag_name().name().ends_with("Vars") {
+            continue;
+        }
+        for var in container.children().filter(|n| n.has_tag_name("variable")) {
+            let Some(vname) = var.attribute("name") else {
+                continue;
+            };
+            let ty = var
+                .children()
+                .find(|n| n.has_tag_name("type"))
+                .map(type_name)
+                .unwrap_or_else(|| "BOOL".to_string());
+            let init = var
+                .children()
+                .find(|n| n.has_tag_name("initialValue"))
+                .and_then(initial_value);
+            match init {
+                Some(v) => out.push_str(&format!("  {vname} : {ty} := {v};\n")),
+                None => out.push_str(&format!("  {vname} : {ty};\n")),
+            }
+            any = true;
+        }
+    }
+    out.push_str("END_VAR\n");
+    if any {
+        out
+    } else {
+        String::new()
+    }
+}
+
+/// Render a PLCopen `<type>` element as an ST type string.
+fn type_name(type_node: Node) -> String {
+    let Some(inner) = type_node.children().find(|n| n.is_element()) else {
+        return "BOOL".to_string();
+    };
+    let tag = inner.tag_name().name();
+    match tag {
+        "derived" => inner.attribute("name").unwrap_or("DERIVED").to_string(),
+        "array" => {
+            let dim = inner.children().find(|n| n.has_tag_name("dimension"));
+            let (lo, hi) = dim
+                .map(|d| {
+                    (
+                        d.attribute("lower").unwrap_or("0").to_string(),
+                        d.attribute("upper").unwrap_or("0").to_string(),
+                    )
+                })
+                .unwrap_or_else(|| ("0".to_string(), "0".to_string()));
+            let base = inner
+                .children()
+                .find(|n| n.has_tag_name("baseType"))
+                .map(type_name)
+                .unwrap_or_else(|| "INT".to_string());
+            format!("ARRAY[{lo}..{hi}] OF {base}")
+        }
+        "string" | "wstring" => "STRING".to_string(),
+        // BOOL, INT, DINT, REAL, TIME, ... — the tag name is the ST type.
+        other => other.to_ascii_uppercase(),
+    }
+}
+
+/// Extract an initial value as an ST literal (quoting strings).
+fn initial_value(iv: Node) -> Option<String> {
+    let simple = iv.descendants().find(|n| n.has_tag_name("simpleValue"))?;
+    let raw = simple.attribute("value")?.trim().to_string();
+    if raw.is_empty() {
+        return None;
+    }
+    // Numbers / booleans / time literals pass through; everything else is a
+    // string literal.
+    let is_scalar = raw.eq_ignore_ascii_case("true")
+        || raw.eq_ignore_ascii_case("false")
+        || raw.starts_with(['T', 't', 'D', 'd']) && raw.contains('#')
+        || raw
+            .chars()
+            .all(|c| c.is_ascii_digit() || c == '.' || c == '-' || c == '+');
+    if is_scalar || raw.starts_with('\'') || raw.starts_with('"') {
+        Some(raw)
+    } else {
+        Some(format!("'{}'", raw.replace('\'', "''")))
+    }
+}
+
+#[cfg(test)]
+mod tests {
+    use super::parse_plcopen;
+    use crate::pipeline::plc::rules;
+    use std::collections::HashSet;
+
+    fn rule_ids(xml: &str) -> HashSet<&'static str> {
+        parse_plcopen(xml)
+            .iter()
+            .flat_map(rules::analyze)
+            .map(|h| h.rule_id)
+            .collect()
+    }
+
+    /// A Ladder Diagram network: a rung (power rail → contact → coil) plus an
+    /// insecure comm block. Coils/contacts translate to assignments; the block
+    /// translates to a call so the port rule fires.
+    #[test]
+    fn ld_coil_and_block_translate_and_are_analysed() {
+        let xml = r#"<?xml version="1.0"?>
+<project xmlns="http://www.plcopen.org/xml/tc6_0201">
+ <types><pous>
+  <pou name="Rung" pouType="program">
+   <interface><localVars>
+     <variable name="Motor"><type><BOOL/></type></variable>
+   </localVars></interface>
+   <body><LD>
+     <leftPowerRail localId="0"/>
+     <contact localId="1"><variable>Start</variable>
+       <connectionPointIn><connection refLocalId="0"/></connectionPointIn></contact>
+     <coil localId="2"><variable>Motor</variable>
+       <connectionPointIn><connection refLocalId="1"/></connectionPointIn></coil>
+     <inVariable localId="3"><expression>21</expression></inVariable>
+     <inVariable localId="4"><expression>FALSE</expression></inVariable>
+     <block localId="10" typeName="Ftp_Send">
+       <inputVariables>
+         <variable formalParameter="PORT">
+           <connectionPointIn><connection refLocalId="3"/></connectionPointIn></variable>
+         <variable formalParameter="ENCRYPT">
+           <connectionPointIn><connection refLocalId="4"/></connectionPointIn></variable>
+       </inputVariables>
+     </block>
+   </LD></body>
+  </pou>
+ </pous></types>
+</project>"#;
+        let ids = rule_ids(xml);
+        // Ftp_Send(PORT := 21, ENCRYPT := FALSE) — port 21 is an insecure protocol.
+        assert!(
+            ids.contains("plc-insecure-protocol-port"),
+            "LD block should flag port 21; got {ids:?}"
+        );
+    }
+
+    /// Doubled-text regression: a graphical expression must be extracted once,
+    /// so literals like `502` and `FALSE` stay intact (not `502502`/`FALSEFALSE`).
+    #[test]
+    fn graphical_expression_text_is_not_duplicated() {
+        let xml = r#"<?xml version="1.0"?>
+<project xmlns="http://www.plcopen.org/xml/tc6_0201">
+ <types><pous>
+  <pou name="Comm" pouType="program">
+   <body><FBD>
+     <inVariable localId="1"><expression>502</expression></inVariable>
+     <inVariable localId="2"><expression>FALSE</expression></inVariable>
+     <block localId="10" typeName="Modbus_TCP_Master">
+       <inputVariables>
+         <variable formalParameter="PORT">
+           <connectionPointIn><connection refLocalId="1"/></connectionPointIn></variable>
+         <variable formalParameter="AUTH">
+           <connectionPointIn><connection refLocalId="2"/></connectionPointIn></variable>
+       </inputVariables>
+     </block>
+   </FBD></body>
+  </pou>
+ </pous></types>
+</project>"#;
+        let ids = rule_ids(xml);
+        assert!(ids.contains("plc-insecure-protocol-port")); // PORT := 502 (not 502502)
+        assert!(ids.contains("plc-insecure-comm")); // AUTH := FALSE (not FALSEFALSE)
+    }
+}

compliance-agent/src/pipeline/plc/rules.rs

@@ -0,0 +1,632 @@
+//! Semantic control-logic security rules over the Structured Text AST.
+//!
+//! Each rule walks the parsed [`Pou`] and yields [`RuleHit`]s the scanner turns
+//! into findings. Rules reason over structure (declarations, assignments, calls,
+//! array accesses, division, jumps) rather than raw text, so they see through
+//! formatting and comments.
+
+use std::collections::{HashMap, HashSet};
+
+use compliance_core::models::Severity;
+
+use super::ast::*;
+
+/// One rule match within a POU.
+pub struct RuleHit {
+    pub line: u32,
+    pub severity: Severity,
+    pub rule_id: &'static str,
+    pub title: String,
+    pub description: String,
+    pub cwe: Option<&'static str>,
+    pub remediation: &'static str,
+}
+
+/// Run every rule over a POU.
+pub fn analyze(pou: &Pou) -> Vec<RuleHit> {
+    let mut hits = Vec::new();
+    let ctx = Ctx::build(pou);
+
+    // Declaration-level rules.
+    for v in &pou.vars {
+        if let Some(init) = &v.init {
+            check_credential_binding(&v.name, init, &pou.name, &mut hits);
+            check_default_password(init, &v.name, &pou.name, &mut hits);
+        }
+    }
+
+    // Body walk.
+    walk(&pou.body, pou, &ctx, &GuardSet::default(), &mut hits);
+    hits
+}
+
+/// Per-POU context precomputed once.
+struct Ctx {
+    /// Names declared in VAR_INPUT (untrusted / externally driven).
+    input_vars: HashSet<String>,
+    /// Array variable name → declared (lo, hi) bounds.
+    arrays: HashMap<String, (i64, i64)>,
+}
+
+impl Ctx {
+    fn build(pou: &Pou) -> Self {
+        let mut input_vars = HashSet::new();
+        let mut arrays = HashMap::new();
+        for v in &pou.vars {
+            if v.section == VarSection::Input {
+                input_vars.insert(v.name.to_ascii_lowercase());
+            }
+            if let Some(b) = v.array_bounds {
+                arrays.insert(v.name.to_ascii_lowercase(), b);
+            }
+        }
+        Self { input_vars, arrays }
+    }
+}
+
+/// Variables proven non-zero on the current control-flow path (from enclosing
+/// `IF`/`WHILE` conditions), so guarded divisions aren't false-flagged.
+#[derive(Default, Clone)]
+struct GuardSet {
+    nonzero: HashSet<String>,
+}
+
+impl GuardSet {
+    fn with(&self, names: Vec<String>) -> Self {
+        let mut g = self.clone();
+        g.nonzero.extend(names);
+        g
+    }
+    fn is_nonzero(&self, name: &str) -> bool {
+        self.nonzero.contains(name)
+    }
+}
+
+/// Variable names a condition proves non-zero (`v <> 0`, `v > 0`, `v >= 1`,
+/// `v < 0`, and conjunctions thereof).
+fn guards_from_cond(cond: &Expr) -> Vec<String> {
+    let mut out = Vec::new();
+    collect_nonzero(cond, &mut out);
+    out
+}
+
+fn collect_nonzero(e: &Expr, out: &mut Vec<String>) {
+    let Expr::Binary { op, lhs, rhs, .. } = e else {
+        return;
+    };
+    let is_zero = |x: &Expr| {
+        matches!(x, Expr::Int(0, _)) || matches!(x, Expr::Real(r, _) if r.abs() < f64::EPSILON)
+    };
+    let int_of = |x: &Expr| match x {
+        Expr::Int(n, _) => Some(*n),
+        _ => None,
+    };
+    match op {
+        BinOp::And => {
+            collect_nonzero(lhs, out);
+            collect_nonzero(rhs, out);
+        }
+        BinOp::Ne => {
+            if let (Some(v), true) = (lhs.as_ident(), is_zero(rhs)) {
+                out.push(v.to_ascii_lowercase());
+            }
+            if let (true, Some(v)) = (is_zero(lhs), rhs.as_ident()) {
+                out.push(v.to_ascii_lowercase());
+            }
+        }
+        BinOp::Gt | BinOp::Lt => {
+            // v > 0  or  v < 0
+            if let (Some(v), true) = (lhs.as_ident(), is_zero(rhs)) {
+                out.push(v.to_ascii_lowercase());
+            }
+        }
+        BinOp::Ge => {
+            // v >= n, n >= 1
+            if let (Some(v), Some(n)) = (lhs.as_ident(), int_of(rhs)) {
+                if n >= 1 {
+                    out.push(v.to_ascii_lowercase());
+                }
+            }
+        }
+        _ => {}
+    }
+}
+
+// ── the walker ─────────────────────────────────────────────────────
+fn walk(stmts: &[Stmt], pou: &Pou, ctx: &Ctx, guards: &GuardSet, hits: &mut Vec<RuleHit>) {
+    for s in stmts {
+        match s {
+            Stmt::Assign {
+                target,
+                value,
+                line,
+            } => {
+                check_safety_bypass(target, value, *line, &pou.name, hits);
+                // A string bound to a secret-looking target is a credential.
+                if let Some(name) = flatten_ident(target) {
+                    check_credential_binding(&name, value, &pou.name, hits);
+                    check_default_password(value, &name, &pou.name, hits);
+                }
+                walk_expr(target, pou, ctx, guards, hits);
+                walk_expr(value, pou, ctx, guards, hits);
+            }
+            Stmt::Call { callee, args, line } => {
+                check_insecure_comm(callee, args, *line, &pou.name, hits);
+                check_credentials_in_call(callee, args, *line, &pou.name, hits);
+                for a in args {
+                    walk_expr(&a.value, pou, ctx, guards, hits);
+                }
+            }
+            Stmt::Jump { label, line } => hits.push(RuleHit {
+                line: *line,
+                severity: Severity::Medium,
+                rule_id: "plc-unstructured-jump",
+                title: "Unstructured jump (JMP) in control logic".to_string(),
+                description: format!(
+                    "POU `{}` uses `JMP {label}`. Unstructured jumps make control flow hard to \
+                     verify and can bypass safety interlocks or leave outputs in an undefined \
+                     state on unexpected paths.",
+                    pou.name
+                ),
+                cwe: Some("CWE-691"),
+                remediation: "Replace JMP with structured constructs (IF/CASE/loops); reserve \
+                              jumps for well-reviewed state machines only.",
+            }),
+            Stmt::If {
+                branches,
+                else_body,
+                ..
+            } => {
+                for (cond, body) in branches {
+                    walk_expr(cond, pou, ctx, guards, hits);
+                    let child = guards.with(guards_from_cond(cond));
+                    walk(body, pou, ctx, &child, hits);
+                }
+                if let Some(b) = else_body {
+                    walk(b, pou, ctx, guards, hits);
+                }
+            }
+            Stmt::Case {
+                selector,
+                arms,
+                else_body,
+                ..
+            } => {
+                walk_expr(selector, pou, ctx, guards, hits);
+                for (labels, body) in arms {
+                    for l in labels {
+                        walk_expr(l, pou, ctx, guards, hits);
+                    }
+                    walk(body, pou, ctx, guards, hits);
+                }
+                if let Some(b) = else_body {
+                    walk(b, pou, ctx, guards, hits);
+                }
+            }
+            Stmt::For {
+                from, to, by, body, ..
+            } => {
+                walk_expr(from, pou, ctx, guards, hits);
+                walk_expr(to, pou, ctx, guards, hits);
+                if let Some(b) = by {
+                    walk_expr(b, pou, ctx, guards, hits);
+                }
+                walk(body, pou, ctx, guards, hits);
+            }
+            Stmt::While { cond, body, .. } => {
+                walk_expr(cond, pou, ctx, guards, hits);
+                let child = guards.with(guards_from_cond(cond));
+                walk(body, pou, ctx, &child, hits);
+            }
+            Stmt::Repeat { body, until, .. } => {
+                walk(body, pou, ctx, guards, hits);
+                walk_expr(until, pou, ctx, guards, hits);
+            }
+            Stmt::Return { .. } | Stmt::Exit { .. } | Stmt::Label { .. } => {}
+        }
+    }
+}
+
+fn walk_expr(e: &Expr, pou: &Pou, ctx: &Ctx, guards: &GuardSet, hits: &mut Vec<RuleHit>) {
+    match e {
+        Expr::Index { base, index, line } => {
+            check_array_bounds(base, index, *line, ctx, &pou.name, hits);
+            walk_expr(base, pou, ctx, guards, hits);
+            walk_expr(index, pou, ctx, guards, hits);
+        }
+        Expr::Binary { op, lhs, rhs, line } => {
+            if matches!(op, BinOp::Div | BinOp::Mod) {
+                check_division(rhs, *line, &pou.name, guards, hits);
+            }
+            walk_expr(lhs, pou, ctx, guards, hits);
+            walk_expr(rhs, pou, ctx, guards, hits);
+        }
+        Expr::Unary { expr, .. } => walk_expr(expr, pou, ctx, guards, hits),
+        Expr::Member { base, .. } => walk_expr(base, pou, ctx, guards, hits),
+        Expr::Call { args, .. } => {
+            for a in args {
+                walk_expr(&a.value, pou, ctx, guards, hits);
+            }
+        }
+        _ => {}
+    }
+}
+
+// ── individual rules ───────────────────────────────────────────────
+const SECRET_HINTS: &[&str] = &[
+    "password",
+    "passwd",
+    "pwd",
+    "secret",
+    "apikey",
+    "api_key",
+    "token",
+    "credential",
+    "privkey",
+    "private_key",
+    "passphrase",
+];
+
+const DEFAULT_PASSWORDS: &[&str] = &[
+    "admin",
+    "administrator",
+    "password",
+    "passwd",
+    "1234",
+    "12345",
+    "123456",
+    "0000",
+    "1111",
+    "root",
+    "default",
+    "admin123",
+    "changeme",
+    "letmein",
+    "guest",
+    "user",
+    "system",
+    "plc",
+    "codesys",
+];
+
+const COMM_FB_HINTS: &[&str] = &[
+    "modbus", "tcp", "udp", "socket", "mqtt", "opcua", "opc_ua", "ethernet", "ethip", "enip",
+    "dnp3", "ftp", "telnet", "http", "send", "connect", "sock", "comm", "profinet", "s7",
+];
+
+/// Insecure cleartext service ports.
+const INSECURE_PORTS: &[i64] = &[21, 23, 80, 502, 20000, 44818, 102];
+
+fn check_credential_binding(var_name: &str, value: &Expr, pou: &str, hits: &mut Vec<RuleHit>) {
+    let name = var_name.to_ascii_lowercase();
+    let looks_secret = SECRET_HINTS.iter().any(|h| name.contains(h));
+    if looks_secret {
+        if let Expr::Str(s, line) = value {
+            if !s.is_empty() {
+                hits.push(RuleHit {
+                    line: *line,
+                    severity: Severity::High,
+                    rule_id: "plc-hardcoded-credential",
+                    title: "Hardcoded credential in PLC program".to_string(),
+                    description: format!(
+                        "POU `{pou}` binds a hardcoded secret to `{var_name}`. Credentials \
+                         embedded in control logic are extracted trivially from a project export \
+                         or a firmware dump and cannot be rotated without a redeploy."
+                    ),
+                    cwe: Some("CWE-798"),
+                    remediation: "Store secrets outside the program (secure parameter store / \
+                                  operator-entered, retained-but-protected memory); never commit \
+                                  them to the POU.",
+                });
+            }
+        }
+    }
+}
+
+fn check_default_password(value: &Expr, var_name: &str, pou: &str, hits: &mut Vec<RuleHit>) {
+    if let Expr::Str(s, line) = value {
+        let lower = s.to_ascii_lowercase();
+        if DEFAULT_PASSWORDS.contains(&lower.as_str()) {
+            hits.push(RuleHit {
+                line: *line,
+                severity: Severity::Critical,
+                rule_id: "plc-default-password",
+                title: "Default/weak password in PLC program".to_string(),
+                description: format!(
+                    "POU `{pou}` uses the well-known default/weak password `{s}` (bound to \
+                     `{var_name}`). Default PLC credentials are the first thing an attacker tries."
+                ),
+                cwe: Some("CWE-1393"),
+                remediation:
+                    "Require a strong, unique, operator-set password; block commissioning \
+                              until the default is changed.",
+            });
+        }
+    }
+}
+
+fn check_credentials_in_call(
+    callee: &str,
+    args: &[CallArg],
+    line: u32,
+    pou: &str,
+    hits: &mut Vec<RuleHit>,
+) {
+    for a in args {
+        if let Some(name) = &a.name {
+            let n = name.to_ascii_lowercase();
+            if SECRET_HINTS.iter().any(|h| n.contains(h)) {
+                if let Expr::Str(s, l) = &a.value {
+                    if !s.is_empty() {
+                        hits.push(RuleHit {
+                            line: *l,
+                            severity: Severity::High,
+                            rule_id: "plc-hardcoded-credential",
+                            title: "Hardcoded credential passed to a function block".to_string(),
+                            description: format!(
+                                "POU `{pou}` passes a hardcoded secret as `{name}` to `{callee}`."
+                            ),
+                            cwe: Some("CWE-798"),
+                            remediation: "Supply credentials from protected configuration at \
+                                          runtime, not as a literal argument.",
+                        });
+                    }
+                }
+            }
+        }
+    }
+    let _ = line;
+}
+
+fn check_safety_bypass(target: &Expr, value: &Expr, line: u32, pou: &str, hits: &mut Vec<RuleHit>) {
+    let Some(name) = flatten_ident(target) else {
+        return;
+    };
+    let n = name.to_ascii_lowercase();
+    let safety = [
+        "safety",
+        "estop",
+        "e_stop",
+        "emergency",
+        "interlock",
+        "guard",
+        "permit",
+    ]
+    .iter()
+    .any(|h| n.contains(h));
+    let watchdog = n.contains("watchdog") || n.contains("wdt");
+    // A safety enable / interlock / watchdog signal driven to FALSE or 0 in
+    // application logic is a bypass (e.g. `Safety_Enable := FALSE`, `Watchdog_Kick := 0`).
+    let disabling = matches!(value, Expr::Bool(false, _)) || matches!(value, Expr::Int(0, _));
+    if (safety || watchdog) && disabling {
+        hits.push(RuleHit {
+            line,
+            severity: Severity::Critical,
+            rule_id: "plc-safety-bypass",
+            title: "Safety interlock / watchdog disabled in logic".to_string(),
+            description: format!(
+                "POU `{pou}` disables a safety-related signal (`{name}`) in program logic. \
+                 Bypassing interlocks or watchdogs in code defeats the plant's protective \
+                 functions and is a direct hazard."
+            ),
+            cwe: Some("CWE-1384"),
+            remediation: "Never disable safety functions from application logic; safety must be \
+                          handled by a certified safety controller / hard-wired circuit.",
+        });
+    }
+}
+
+fn check_array_bounds(
+    base: &Expr,
+    index: &Expr,
+    line: u32,
+    ctx: &Ctx,
+    pou: &str,
+    hits: &mut Vec<RuleHit>,
+) {
+    // Only reason about arrays we know the bounds of.
+    let Some(arr_name) = base.as_ident() else {
+        return;
+    };
+    if !ctx.arrays.contains_key(&arr_name.to_ascii_lowercase()) {
+        return;
+    }
+    // Index by an untrusted input variable → potential out-of-bounds access.
+    if let Some(idx_name) = index.as_ident() {
+        if ctx.input_vars.contains(&idx_name.to_ascii_lowercase()) {
+            hits.push(RuleHit {
+                line,
+                severity: Severity::High,
+                rule_id: "plc-array-unchecked-index",
+                title: "Array indexed by unvalidated input".to_string(),
+                description: format!(
+                    "POU `{pou}` indexes array `{arr_name}` with the input variable `{idx_name}` \
+                     without a validated bounds check. An out-of-range index corrupts adjacent \
+                     memory or faults the PLC (loss of control)."
+                ),
+                cwe: Some("CWE-129"),
+                remediation: "Clamp or validate the index against the array bounds (e.g. \
+                              `LIMIT`/explicit `IF idx >= lo AND idx <= hi`) before the access.",
+            });
+        }
+    }
+}
+
+fn check_division(
+    divisor: &Expr,
+    line: u32,
+    pou: &str,
+    guards: &GuardSet,
+    hits: &mut Vec<RuleHit>,
+) {
+    // A divisor proven non-zero by an enclosing guard is safe.
+    if let Expr::Ident(name, _) = divisor {
+        if guards.is_nonzero(&name.to_ascii_lowercase()) {
+            return;
+        }
+    }
+    // Flag division by a variable (could be zero); nonzero literals are fine.
+    let risky = matches!(
+        divisor,
+        Expr::Ident(_, _) | Expr::Member { .. } | Expr::Index { .. } | Expr::Int(0, _)
+    );
+    if risky {
+        hits.push(RuleHit {
+            line,
+            severity: Severity::Medium,
+            rule_id: "plc-division-by-zero",
+            title: "Division by a variable without a zero-guard".to_string(),
+            description: format!(
+                "POU `{pou}` divides by a variable that is not proven non-zero. A zero divisor \
+                 raises a PLC exception and can halt the scan cycle (denial of control)."
+            ),
+            cwe: Some("CWE-369"),
+            remediation: "Guard the divisor (`IF d <> 0 THEN …`) or use a safe-divide helper that \
+                          returns a defined value for a zero denominator.",
+        });
+    }
+}
+
+fn check_insecure_comm(
+    callee: &str,
+    args: &[CallArg],
+    line: u32,
+    pou: &str,
+    hits: &mut Vec<RuleHit>,
+) {
+    let c = callee.to_ascii_lowercase();
+    let is_comm = COMM_FB_HINTS.iter().any(|h| c.contains(h));
+    if !is_comm {
+        return;
+    }
+    // Auth/encryption explicitly disabled.
+    for a in args {
+        if let Some(name) = &a.name {
+            let n = name.to_ascii_lowercase();
+            let security_flag = ["auth", "secure", "encrypt", "tls", "ssl", "authentication"]
+                .iter()
+                .any(|h| n.contains(h));
+            if security_flag && matches!(a.value, Expr::Bool(false, _)) {
+                hits.push(RuleHit {
+                    line,
+                    severity: Severity::High,
+                    rule_id: "plc-insecure-comm",
+                    title: "Network communication with security disabled".to_string(),
+                    description: format!(
+                        "POU `{pou}` calls `{callee}` with `{name} := FALSE`, disabling \
+                         authentication/encryption on an industrial network link."
+                    ),
+                    cwe: Some("CWE-319"),
+                    remediation: "Enable authentication + transport encryption; segment OT \
+                                  networks and restrict the endpoint to trusted peers.",
+                });
+            }
+        }
+        // Well-known cleartext port literal.
+        if let Expr::Int(p, _) = &a.value {
+            if INSECURE_PORTS.contains(p) {
+                hits.push(RuleHit {
+                    line,
+                    severity: Severity::Medium,
+                    rule_id: "plc-insecure-protocol-port",
+                    title: "Cleartext industrial protocol port".to_string(),
+                    description: format!(
+                        "POU `{pou}` opens `{callee}` on port {p}, a well-known cleartext OT \
+                         protocol port with no built-in authentication or encryption."
+                    ),
+                    cwe: Some("CWE-319"),
+                    remediation: "Front the protocol with a secure gateway/VPN, or use the \
+                                  authenticated/encrypted variant; never expose it to untrusted \
+                                  networks.",
+                });
+            }
+        }
+    }
+    let _ = line;
+}
+
+/// The dotted/base identifier of an lvalue expression (`a`, `a.b` → `a.b`,
+/// `a[i]` → `a`), for name-based rules.
+fn flatten_ident(e: &Expr) -> Option<String> {
+    match e {
+        Expr::Ident(n, _) => Some(n.clone()),
+        Expr::Member { base, field, .. } => flatten_ident(base).map(|b| format!("{b}.{field}")),
+        Expr::Index { base, .. } => flatten_ident(base),
+        _ => None,
+    }
+}
+
+#[cfg(test)]
+mod tests {
+    use super::*;
+    use crate::pipeline::plc::parser;
+
+    const VULN: &str = r#"
+FUNCTION_BLOCK CommCtrl
+VAR_INPUT
+    cmdIndex : INT;
+END_VAR
+VAR
+    Password : STRING := 'admin123';
+    buffer : ARRAY[0..15] OF INT;
+    Safety_Enable : BOOL := TRUE;
+    divisor : INT;
+    result : INT;
+END_VAR
+    Safety_Enable := FALSE;
+    result := 100 / divisor;
+    buffer[cmdIndex] := 1;
+    Modbus_Connect(IP := '192.168.0.10', PORT := 502, AUTH := FALSE);
+    IF cmdIndex > 100 THEN
+        JMP fault;
+    END_IF;
+fault:
+    result := 0;
+END_FUNCTION_BLOCK
+"#;
+
+    fn rule_ids(src: &str) -> Vec<&'static str> {
+        parser::parse(src)
+            .iter()
+            .flat_map(analyze)
+            .map(|h| h.rule_id)
+            .collect()
+    }
+
+    #[test]
+    fn vulnerable_program_triggers_every_rule() {
+        let ids = rule_ids(VULN);
+        for expected in [
+            "plc-hardcoded-credential",
+            "plc-default-password",
+            "plc-safety-bypass",
+            "plc-division-by-zero",
+            "plc-array-unchecked-index",
+            "plc-insecure-comm",
+            "plc-insecure-protocol-port",
+            "plc-unstructured-jump",
+        ] {
+            assert!(
+                ids.contains(&expected),
+                "expected rule {expected}, got {ids:?}"
+            );
+        }
+    }
+
+    #[test]
+    fn clean_program_has_no_findings() {
+        let clean = r#"
+PROGRAM Clean
+VAR
+    a : INT := 5;
+    b : INT := 3;
+    total : INT;
+END_VAR
+    IF b <> 0 THEN
+        total := a / b;
+    END_IF;
+END_PROGRAM
+"#;
+        assert!(rule_ids(clean).is_empty(), "clean program should be quiet");
+    }
+}

compliance-agent/src/pipeline/plc/sbom.rs

@@ -0,0 +1,253 @@
+//! Control-application dependency SBOM from a CODESYS `.projectarchive`.
+//!
+//! A `.projectarchive` is a ZIP that bundles the project plus its referenced
+//! libraries and the target runtime. Each referenced library is an entry whose
+//! path segment follows the CODESYS convention
+//! `Name, Major.Minor.Patch.Build (Company)` (e.g. `Standard, 3.5.18.0 (System)`,
+//! `CSV Utility SL, 1.9.0.0 (CODESYS)`); the runtime appears as a device-descriptor
+//! entry `CODESYS Control … <version> …`. We enumerate those entries — no binary
+//! parsing — and emit SBOM components tagged `pkg:codesys/…`, so the CVE pipeline
+//! can match them (the runtime `Cmp*` / `3SLicense` components carry real CODESYS
+//! CVEs).
+
+use std::collections::BTreeSet;
+use std::path::{Path, PathBuf};
+
+use compliance_core::models::SbomEntry;
+
+/// Collect the control-application SBOM from every `.projectarchive` reachable for
+/// a target: the ingested artifact file itself (an uploaded archive), plus any
+/// `*.projectarchive` committed inside the working tree — e.g. a git repo or an
+/// extracted source archive that ships the archive alongside its PLCopen XML / ST
+/// exports. Deduplicated by (name, version).
+pub fn collect_sbom(artifact_file: &Path, working_path: &Path, repo_id: &str) -> Vec<SbomEntry> {
+    let mut archives: Vec<PathBuf> = Vec::new();
+    if artifact_file.is_file() {
+        archives.push(artifact_file.to_path_buf());
+    }
+    for entry in walkdir::WalkDir::new(working_path)
+        .max_depth(8)
+        .into_iter()
+        .filter_map(|e| e.ok())
+    {
+        let p = entry.path();
+        if entry.file_type().is_file()
+            && p.extension()
+                .and_then(|x| x.to_str())
+                .is_some_and(|x| x.eq_ignore_ascii_case("projectarchive"))
+        {
+            archives.push(p.to_path_buf());
+        }
+    }
+    let mut seen: BTreeSet<(String, String)> = BTreeSet::new();
+    let mut out = Vec::new();
+    for a in archives {
+        for e in projectarchive_sbom(&a, repo_id) {
+            if seen.insert((e.name.clone(), e.version.clone())) {
+                out.push(e);
+            }
+        }
+    }
+    out
+}
+
+/// Extract CODESYS library + runtime components from a `.projectarchive` (a zip).
+/// Best-effort: returns empty if the file is not a readable zip (e.g. a bare
+/// `.st`/`.xml` project, which carries no library manifest).
+pub fn projectarchive_sbom(archive: &Path, repo_id: &str) -> Vec<SbomEntry> {
+    let Ok(file) = std::fs::File::open(archive) else {
+        return Vec::new();
+    };
+    let Ok(mut zip) = zip::ZipArchive::new(file) else {
+        return Vec::new();
+    };
+    let mut seen: BTreeSet<(String, String)> = BTreeSet::new();
+    let mut entries = Vec::new();
+    for i in 0..zip.len() {
+        let Ok(entry) = zip.by_index(i) else {
+            continue;
+        };
+        // Entry paths use `\` (Windows-authored) and/or `/` separators; the
+        // component id is one path segment.
+        for seg in entry.name().split(['/', '\\']) {
+            if let Some((name, version)) = parse_library(seg).or_else(|| parse_runtime(seg)) {
+                if seen.insert((name.clone(), version.clone())) {
+                    let mut e = SbomEntry::new(
+                        repo_id.to_string(),
+                        name.clone(),
+                        version.clone(),
+                        "codesys".to_string(),
+                    );
+                    e.purl = Some(format!(
+                        "pkg:codesys/{}@{version}",
+                        name.replace(' ', "%20")
+                    ));
+                    entries.push(e);
+                }
+            }
+        }
+    }
+    entries
+}
+
+/// `Name, X.Y.Z.W (Company)` → (name, version).
+fn parse_library(seg: &str) -> Option<(String, String)> {
+    let seg = seg.trim();
+    // Company is the trailing "(…)".
+    let open = seg.rfind(" (")?;
+    let rest = &seg[open + 2..];
+    let close = rest.find(')')?;
+    if rest[..close].trim().is_empty() {
+        return None;
+    }
+    let head = seg[..open].trim(); // "Name, X.Y.Z.W"
+    let comma = head.rfind(", ")?;
+    let name = head[..comma].trim().to_string();
+    let version = head[comma + 2..].trim().to_string();
+    if name.is_empty() || !is_dotted_version(&version) {
+        return None;
+    }
+    Some((name, version))
+}
+
+/// Device-descriptor entry `CODESYS Control … X.Y.Z.W …` → (runtime name, version).
+fn parse_runtime(seg: &str) -> Option<(String, String)> {
+    let seg = seg.trim();
+    if !seg.starts_with("CODESYS Control") {
+        return None;
+    }
+    let version = seg
+        .split_whitespace()
+        .find(|t| is_dotted_version(t))?
+        .to_string();
+    // The runtime name is the first field, before the run of padding spaces that
+    // precede the descriptor's numeric columns.
+    let name = seg.split("  ").next().unwrap_or(seg).trim().to_string();
+    if name.is_empty() {
+        return None;
+    }
+    Some((name, version))
+}
+
+/// A dotted numeric version with at least 3 components (`3.5.18.0`, `4.17.0.0`).
+fn is_dotted_version(s: &str) -> bool {
+    let parts: Vec<&str> = s.split('.').collect();
+    parts.len() >= 3
+        && parts
+            .iter()
+            .all(|p| !p.is_empty() && p.chars().all(|c| c.is_ascii_digit()))
+}
+
+#[cfg(test)]
+mod tests {
+    use super::*;
+    use std::collections::HashMap;
+    use std::io::Write;
+
+    /// Build a synthetic `.projectarchive` (zip) mirroring the real CODESYS entry
+    /// naming (verified against Proemion/codesys-examples): a native `.project`,
+    /// referenced libraries as `Name, Version (Company)` segments, and a runtime
+    /// device descriptor.
+    fn synthetic_archive(dir: &Path) -> std::path::PathBuf {
+        let path = dir.join("App.projectarchive");
+        write_synthetic_archive(&path);
+        path
+    }
+
+    fn write_synthetic_archive(path: &Path) {
+        let file = std::fs::File::create(path).expect("create");
+        let mut zip = zip::ZipWriter::new(file);
+        let opts: zip::write::SimpleFileOptions = Default::default();
+        let names = [
+            "App.project",
+            r"{b0b5}\App.Device.Plc.compileinfo",
+            r"{e179}\Standard, 3.5.18.0 (System)   standard.compiled-library-v3",
+            r"{e179}\Util, 3.5.21.0 (System)   util.compiled-library-v3",
+            r"{e179}\CSV Utility SL, 1.9.0.0 (CODESYS)   csv utility sl.compiled-library-v3",
+            r"{e179}\3SLicense, 3.5.20.0 (CODESYS)   3slicense.compiled-library-v3",
+            r"{0c63}\CODESYS Control for Linux ARM SL     0000 0006     4.17.0.0     4096     .zip",
+        ];
+        for n in names {
+            zip.start_file(n, opts).expect("start");
+            zip.write_all(b"x").expect("write");
+        }
+        zip.finish().expect("finish");
+    }
+
+    #[test]
+    fn extracts_libraries_and_runtime_from_projectarchive() {
+        let tmp = std::env::temp_dir().join(format!("cs-plc-sbom-{}", uuid::Uuid::new_v4()));
+        std::fs::create_dir_all(&tmp).expect("mkdir");
+        let archive = synthetic_archive(&tmp);
+
+        let entries = projectarchive_sbom(&archive, "plc-target");
+        let by_name: HashMap<&str, &SbomEntry> =
+            entries.iter().map(|e| (e.name.as_str(), e)).collect();
+
+        // Libraries with their versions.
+        assert_eq!(
+            by_name.get("Standard").map(|e| e.version.as_str()),
+            Some("3.5.18.0")
+        );
+        assert_eq!(
+            by_name.get("Util").map(|e| e.version.as_str()),
+            Some("3.5.21.0")
+        );
+        assert_eq!(
+            by_name.get("CSV Utility SL").map(|e| e.version.as_str()),
+            Some("1.9.0.0"),
+            "multi-word library names must parse"
+        );
+        assert!(by_name.contains_key("3SLicense"));
+
+        // The runtime, from the device descriptor.
+        assert_eq!(
+            by_name
+                .get("CODESYS Control for Linux ARM SL")
+                .map(|e| e.version.as_str()),
+            Some("4.17.0.0")
+        );
+
+        // Every component is CODESYS-tagged with a purl the CVE pipeline can match,
+        // and the native `.project` / compileinfo are not mistaken for components.
+        for e in &entries {
+            assert_eq!(e.package_manager, "codesys");
+            assert!(e.purl.as_deref().unwrap_or("").starts_with("pkg:codesys/"));
+        }
+        assert!(!by_name.contains_key("App"));
+
+        let _ = std::fs::remove_dir_all(&tmp);
+    }
+
+    #[test]
+    fn collect_sbom_finds_a_projectarchive_committed_in_a_git_tree() {
+        let tmp = std::env::temp_dir().join(format!("cs-plc-collect-{}", uuid::Uuid::new_v4()));
+        let src = tmp.join("clone/src");
+        std::fs::create_dir_all(&src).expect("mkdir");
+        // Simulate a git clone that commits the archive alongside its exports.
+        write_synthetic_archive(&src.join("PumpStation.projectarchive"));
+
+        // The artifact "file" is a git URL (not a real file), so the SBOM must
+        // come from walking the cloned tree.
+        let entries = collect_sbom(Path::new("https://git.example/plc.git"), &tmp, "t");
+        let names: std::collections::HashSet<&str> =
+            entries.iter().map(|e| e.name.as_str()).collect();
+        assert!(
+            names.contains("Standard"),
+            "found libs in the committed archive"
+        );
+        assert!(names.contains("CODESYS Control for Linux ARM SL"));
+
+        let _ = std::fs::remove_dir_all(&tmp);
+    }
+
+    #[test]
+    fn non_zip_file_yields_no_sbom() {
+        let tmp = std::env::temp_dir().join(format!("cs-plc-sbom-st-{}", uuid::Uuid::new_v4()));
+        std::fs::create_dir_all(&tmp).expect("mkdir");
+        let st = tmp.join("prog.st");
+        std::fs::write(&st, "PROGRAM P\nVAR x : INT; END_VAR\nEND_PROGRAM\n").expect("write");
+        assert!(projectarchive_sbom(&st, "t").is_empty());
+        let _ = std::fs::remove_dir_all(&tmp);
+    }
+}

compliance-agent/src/pipeline/pr_review.rs

@@ -1,3 +1,4 @@
+use crate::pipeline::repo_view::RepoView;
 use compliance_core::models::*;
 
 use super::dedup::compute_fingerprint;
@@ -14,7 +15,7 @@ impl PipelineOrchestrator {
     #[tracing::instrument(skip_all, fields(repo_id = %repo_id, pr_number))]
     pub async fn run_pr_review(
         &self,
-        repo: &TrackedRepository,
+        repo: &RepoView,
         repo_id: &str,
         pr_number: u64,
         base_sha: &str,

compliance-agent/src/pipeline/repo_view.rs

@@ -0,0 +1,74 @@
+//! `RepoView` — an internal, non-persisted view of a code target for the scan
+//! pipeline.
+//!
+//! It replaces the old persisted `TrackedRepository` model. The pipeline
+//! (SAST → SBOM → CVE → triage → issues → DAST, and PR review) only ever needs a
+//! flat bundle of git + issue-tracker + auth fields; those are projected from an
+//! [`OnboardedTarget`] and its code [`Artifact`] by [`RepoView::from_target`].
+//! Nothing here is written to Mongo — onboarded targets are the sole persisted
+//! entity.
+
+use compliance_core::models::{Artifact, OnboardedTarget, TrackerType};
+
+/// A flat, pipeline-facing view of a code target. Built from an onboarded
+/// target; never persisted.
+#[derive(Debug, Clone)]
+pub struct RepoView {
+    /// The onboarded target's id (used as `repo_id` across findings/sbom/etc.).
+    pub id: Option<mongodb::bson::oid::ObjectId>,
+    pub name: String,
+    pub git_url: String,
+    pub default_branch: String,
+    pub local_path: Option<String>,
+    pub scan_schedule: Option<String>,
+    pub webhook_enabled: bool,
+    pub webhook_secret: Option<String>,
+    pub tracker_type: Option<TrackerType>,
+    pub tracker_owner: Option<String>,
+    pub tracker_repo: Option<String>,
+    pub tracker_token: Option<String>,
+    pub auth_token: Option<String>,
+    pub auth_username: Option<String>,
+    pub last_scanned_commit: Option<String>,
+    pub findings_count: u32,
+}
+
+impl RepoView {
+    /// Project an onboarded target + its code artifact into a pipeline view.
+    pub fn from_target(target: &OnboardedTarget, code: &Artifact) -> Self {
+        let mut view = Self {
+            id: target.id,
+            name: target.name.clone(),
+            git_url: code.source_ref.clone(),
+            default_branch: "main".to_string(),
+            local_path: None,
+            scan_schedule: target.scan_schedule.clone(),
+            webhook_enabled: target.webhook_enabled,
+            webhook_secret: target.webhook_secret.clone(),
+            tracker_type: None,
+            tracker_owner: None,
+            tracker_repo: None,
+            tracker_token: None,
+            auth_token: None,
+            auth_username: None,
+            last_scanned_commit: None,
+            findings_count: target.findings_count,
+        };
+        if let Some(git) = &code.git {
+            view.default_branch = git.default_branch.clone();
+            view.last_scanned_commit = git.last_scanned_commit.clone();
+            view.local_path = git.local_path.clone();
+        }
+        if let Some(auth) = &code.auth {
+            view.auth_token = auth.secret.clone();
+            view.auth_username = auth.username.clone();
+        }
+        if let Some(it) = &target.scan_config.issue_tracker {
+            view.tracker_type = it.tracker_type.clone();
+            view.tracker_owner = it.owner.clone();
+            view.tracker_repo = it.repo.clone();
+            view.tracker_token = it.token.clone();
+        }
+        view
+    }
+}

compliance-agent/src/scheduler.rs

@@ -348,7 +348,7 @@ async fn monitor_cves(agent: &ComplianceAgent, tenant_id: &str) {
         std::collections::HashMap::new();
     for rid in &repo_ids {
         if let Ok(oid) = mongodb::bson::oid::ObjectId::parse_str(rid) {
-            if let Ok(Some(repo)) = db.repositories().find_one(doc! { "_id": oid }).await {
+            if let Ok(Some(repo)) = db.onboarded_targets().find_one(doc! { "_id": oid }).await {
                 repo_names.insert(rid.clone(), repo.name.clone());
             }
         }

compliance-agent/src/webhooks/gitea.rs

@@ -31,7 +31,7 @@ pub async fn handle_gitea_webhook(
         }
     };
     let repo = match db
-        .repositories()
+        .onboarded_targets()
         .find_one(mongodb::bson::doc! { "_id": oid })
         .await
     {

compliance-agent/src/webhooks/github.rs

@@ -31,7 +31,7 @@ pub async fn handle_github_webhook(
         }
     };
     let repo = match db
-        .repositories()
+        .onboarded_targets()
         .find_one(mongodb::bson::doc! { "_id": oid })
         .await
     {

compliance-agent/src/webhooks/gitlab.rs

@@ -27,7 +27,7 @@ pub async fn handle_gitlab_webhook(
         }
     };
     let repo = match db
-        .repositories()
+        .onboarded_targets()
         .find_one(mongodb::bson::doc! { "_id": oid })
         .await
     {

compliance-agent/tests/common/mod.rs

@@ -70,7 +70,6 @@ impl TestServer {
             pentest_imap_password: None,
             admin_api_token: None,
             tenant_registry_url: None,
-            unified_pipeline: false,
         };
 
         let agent = ComplianceAgent::new(config, db_pool);

compliance-agent/tests/integration/api/cascade_delete.rs

@@ -113,15 +113,16 @@ async fn delete_repo_cascades_to_dast_and_pentest_data() {
     // Create a repo
     let resp = server
         .post(
-            "/api/v1/repositories",
+            "/api/v1/targets",
             &json!({
                 "name": "cascade-test",
-                "git_url": "https://github.com/example/cascade-test.git",
+                "target_type": "web_app",
+                "artifacts": [{ "kind": "git_repo", "source_ref": "https://github.com/example/cascade-test.git", "branch": "main" }],
             }),
         )
         .await;
     let body: serde_json::Value = resp.json().await.unwrap();
-    let repo_id = body["data"]["id"].as_str().unwrap().to_string();
+    let repo_id = body["data"]["_id"]["$oid"].as_str().unwrap().to_string();
 
     // Insert DAST target linked to repo
     let target_id = insert_dast_target(&server, &repo_id, "cascade-target").await;
@@ -140,9 +141,7 @@ async fn delete_repo_cascades_to_dast_and_pentest_data() {
     assert_eq!(count_docs(&server, "dast_findings").await, 1);
 
     // Delete the repo
-    let resp = server
-        .delete(&format!("/api/v1/repositories/{repo_id}"))
-        .await;
+    let resp = server.delete(&format!("/api/v1/targets/{repo_id}")).await;
     assert_eq!(resp.status(), 200);
 
     // All downstream data should be gone
@@ -161,15 +160,16 @@ async fn delete_repo_cascades_sast_findings_and_sbom() {
     // Create a repo
     let resp = server
         .post(
-            "/api/v1/repositories",
+            "/api/v1/targets",
             &json!({
                 "name": "sast-cascade",
-                "git_url": "https://github.com/example/sast-cascade.git",
+                "target_type": "web_app",
+                "artifacts": [{ "kind": "git_repo", "source_ref": "https://github.com/example/sast-cascade.git", "branch": "main" }],
             }),
         )
         .await;
     let body: serde_json::Value = resp.json().await.unwrap();
-    let repo_id = body["data"]["id"].as_str().unwrap().to_string();
+    let repo_id = body["data"]["_id"]["$oid"].as_str().unwrap().to_string();
 
     // Insert SAST finding and SBOM entry
     let mongodb_uri = std::env::var("TEST_MONGODB_URI")
@@ -209,9 +209,7 @@ async fn delete_repo_cascades_sast_findings_and_sbom() {
     assert_eq!(count_docs(&server, "sbom_entries").await, 1);
 
     // Delete repo
-    server
-        .delete(&format!("/api/v1/repositories/{repo_id}"))
-        .await;
+    server.delete(&format!("/api/v1/targets/{repo_id}")).await;
 
     // Both should be gone
     assert_eq!(count_docs(&server, "findings").await, 0);

compliance-agent/tests/integration/api/mod.rs

@@ -3,5 +3,4 @@ mod dast;
 mod findings;
 mod health;
 mod onboarding;
-mod repositories;
 mod stats;

compliance-agent/tests/integration/api/repositories.rs

@@ -1,110 +0,0 @@
-use crate::common::TestServer;
-use serde_json::json;
-
-#[tokio::test]
-async fn add_and_list_repository() {
-    let server = TestServer::start().await;
-
-    // Initially empty
-    let resp = server.get("/api/v1/repositories").await;
-    assert_eq!(resp.status(), 200);
-    let body: serde_json::Value = resp.json().await.unwrap();
-    assert_eq!(body["data"].as_array().unwrap().len(), 0);
-
-    // Add a repository
-    let resp = server
-        .post(
-            "/api/v1/repositories",
-            &json!({
-                "name": "test-repo",
-                "git_url": "https://github.com/example/test-repo.git",
-            }),
-        )
-        .await;
-    assert_eq!(resp.status(), 200);
-    let body: serde_json::Value = resp.json().await.unwrap();
-    let repo_id = body["data"]["id"].as_str().unwrap().to_string();
-    assert!(!repo_id.is_empty());
-
-    // List should now return 1
-    let resp = server.get("/api/v1/repositories").await;
-    let body: serde_json::Value = resp.json().await.unwrap();
-    let repos = body["data"].as_array().unwrap();
-    assert_eq!(repos.len(), 1);
-    assert_eq!(repos[0]["name"], "test-repo");
-
-    server.cleanup().await;
-}
-
-#[tokio::test]
-async fn add_duplicate_repository_fails() {
-    let server = TestServer::start().await;
-
-    let payload = json!({
-        "name": "dup-repo",
-        "git_url": "https://github.com/example/dup-repo.git",
-    });
-
-    // First add succeeds
-    let resp = server.post("/api/v1/repositories", &payload).await;
-    assert_eq!(resp.status(), 200);
-
-    // Second add with same git_url should fail (unique index)
-    let resp = server.post("/api/v1/repositories", &payload).await;
-    assert_ne!(resp.status(), 200);
-
-    server.cleanup().await;
-}
-
-#[tokio::test]
-async fn delete_repository() {
-    let server = TestServer::start().await;
-
-    // Add a repo
-    let resp = server
-        .post(
-            "/api/v1/repositories",
-            &json!({
-                "name": "to-delete",
-                "git_url": "https://github.com/example/to-delete.git",
-            }),
-        )
-        .await;
-    let body: serde_json::Value = resp.json().await.unwrap();
-    let repo_id = body["data"]["id"].as_str().unwrap();
-
-    // Delete it
-    let resp = server
-        .delete(&format!("/api/v1/repositories/{repo_id}"))
-        .await;
-    assert_eq!(resp.status(), 200);
-
-    // List should be empty again
-    let resp = server.get("/api/v1/repositories").await;
-    let body: serde_json::Value = resp.json().await.unwrap();
-    assert_eq!(body["data"].as_array().unwrap().len(), 0);
-
-    server.cleanup().await;
-}
-
-#[tokio::test]
-async fn delete_nonexistent_repository_returns_404() {
-    let server = TestServer::start().await;
-
-    let resp = server
-        .delete("/api/v1/repositories/000000000000000000000000")
-        .await;
-    assert_eq!(resp.status(), 404);
-
-    server.cleanup().await;
-}
-
-#[tokio::test]
-async fn delete_invalid_id_returns_400() {
-    let server = TestServer::start().await;
-
-    let resp = server.delete("/api/v1/repositories/not-a-valid-id").await;
-    assert_eq!(resp.status(), 400);
-
-    server.cleanup().await;
-}

compliance-agent/tests/integration/api/stats.rs

@@ -5,13 +5,14 @@ use serde_json::json;
 async fn stats_overview_reflects_inserted_data() {
     let server = TestServer::start().await;
 
-    // Add a repo
+    // Add a target
     server
         .post(
-            "/api/v1/repositories",
+            "/api/v1/targets",
             &json!({
                 "name": "stats-repo",
-                "git_url": "https://github.com/example/stats-repo.git",
+                "target_type": "web_app",
+                "artifacts": [{ "kind": "git_repo", "source_ref": "https://github.com/example/stats-repo.git", "branch": "main" }],
             }),
         )
         .await;

compliance-agent/tests/integration/migration.rs

@@ -1,156 +0,0 @@
-// Integration tests for the onboarding backfill migration.
-//
-// Requires MongoDB (set TEST_MONGODB_URI if not at the default).
-// Not run in CI (which is `--lib` only) — run locally:
-//   cargo test -p compliance-agent --test e2e migration
-
-use compliance_agent::database::{Database, DatabasePool};
-use compliance_agent::migrate::onboarding;
-use compliance_core::models::{
-    ArtifactKind, DastTarget, DastTargetType, TargetType, TrackedRepository,
-};
-use mongodb::bson::{doc, Document};
-
-async fn fresh_db() -> (DatabasePool, String, Database) {
-    let uri = std::env::var("TEST_MONGODB_URI")
-        .unwrap_or_else(|_| "mongodb://root:example@localhost:27017/?authSource=admin".into());
-    // Prefix must fit the pool's 30-char cap (`<prefix>_<32 hex>` <= 63).
-    let prefix = format!("t_{}", &uuid::Uuid::new_v4().simple().to_string()[..16]);
-    let pool = DatabasePool::connect(&uri, &prefix)
-        .await
-        .expect("connect mongo");
-    let db = pool.for_tenant_id("t1").await.expect("tenant db");
-    (pool, prefix, db)
-}
-
-async fn cleanup(pool: &DatabasePool, prefix: &str) {
-    if let Ok(names) = pool.client().list_database_names().await {
-        for n in names {
-            if n.starts_with(prefix) {
-                pool.client().database(&n).drop().await.ok();
-            }
-        }
-    }
-}
-
-#[tokio::test]
-async fn backfill_folds_relinks_is_idempotent_and_reversible() {
-    let (pool, prefix, db) = fresh_db().await;
-
-    // Seed a repo.
-    let repo = TrackedRepository::new("acme".into(), "https://git/acme.git".into());
-    let repo_id = db
-        .repositories()
-        .insert_one(repo)
-        .await
-        .expect("insert repo")
-        .inserted_id
-        .as_object_id()
-        .expect("repo oid");
-
-    // A DAST target linked to the repo (folds + promotes to WebApp + relinks).
-    let mut linked = DastTarget::new(
-        "acme-web".into(),
-        "https://acme.example.com".into(),
-        DastTargetType::WebApp,
-    );
-    linked.repo_id = Some(repo_id.to_hex());
-    let linked_id = db
-        .dast_targets()
-        .insert_one(linked)
-        .await
-        .expect("insert linked dast")
-        .inserted_id
-        .as_object_id()
-        .expect("linked oid");
-
-    // A repo-less DAST target (standalone).
-    let standalone = DastTarget::new(
-        "acme-api".into(),
-        "https://api.acme.com".into(),
-        DastTargetType::RestApi,
-    );
-    let standalone_id = db
-        .dast_targets()
-        .insert_one(standalone)
-        .await
-        .expect("insert standalone dast")
-        .inserted_id
-        .as_object_id()
-        .expect("standalone oid");
-
-    // A DAST scan run pointing at the linked target — should be relinked to the repo.
-    db.collection_named::<Document>("dast_scan_runs")
-        .insert_one(doc! { "target_id": linked_id.to_hex(), "status": "completed" })
-        .await
-        .expect("insert dast run");
-
-    // --- Backfill ---
-    assert!(!onboarding::already_applied(&db).await.unwrap());
-    let report = onboarding::backfill_onboarded_targets(&db, false)
-        .await
-        .expect("backfill");
-    assert_eq!(report.repos_migrated, 1);
-    assert_eq!(report.dast_targets_folded, 1);
-    assert_eq!(report.dast_targets_standalone, 1);
-    assert!(onboarding::already_applied(&db).await.unwrap());
-
-    // Repo target: preserved _id, has git + folded live-url, promoted to WebApp.
-    let repo_target = db
-        .onboarded_targets()
-        .find_one(doc! { "_id": repo_id })
-        .await
-        .unwrap()
-        .expect("repo target");
-    assert!(repo_target.has(ArtifactKind::GitRepo));
-    assert!(repo_target.has(ArtifactKind::LiveUrl));
-    assert_eq!(repo_target.target_type, TargetType::WebApp);
-
-    // Standalone target: preserved _id, live-url, backend service.
-    let standalone_target = db
-        .onboarded_targets()
-        .find_one(doc! { "_id": standalone_id })
-        .await
-        .unwrap()
-        .expect("standalone target");
-    assert!(standalone_target.has(ArtifactKind::LiveUrl));
-    assert_eq!(standalone_target.target_type, TargetType::BackendService);
-
-    // The DAST run was relinked from the old dast id to the repo (unified) id.
-    let run = db
-        .collection_named::<Document>("dast_scan_runs")
-        .find_one(doc! {})
-        .await
-        .unwrap()
-        .expect("run");
-    assert_eq!(run.get_str("target_id").unwrap(), repo_id.to_hex());
-
-    // --- Idempotent: re-run migrates nothing new ---
-    let again = onboarding::backfill_onboarded_targets(&db, false)
-        .await
-        .expect("backfill again");
-    assert_eq!(again.repos_migrated, 0);
-    assert_eq!(again.dast_targets_folded, 0);
-    assert_eq!(again.dast_targets_standalone, 0);
-    assert!(again.skipped_existing >= 2);
-
-    // --- Revert: onboarded targets gone, relink undone, marker cleared ---
-    onboarding::revert(&db).await.expect("revert");
-    assert_eq!(
-        db.onboarded_targets()
-            .count_documents(doc! {})
-            .await
-            .unwrap(),
-        0
-    );
-    let run_after = db
-        .collection_named::<Document>("dast_scan_runs")
-        .find_one(doc! {})
-        .await
-        .unwrap()
-        .expect("run");
-    assert_eq!(run_after.get_str("target_id").unwrap(), linked_id.to_hex());
-    assert!(!onboarding::already_applied(&db).await.unwrap());
-
-    cleanup(&pool, &prefix).await;
-}

compliance-agent/tests/integration/mod.rs

@@ -7,4 +7,3 @@
 // Or nightly: (via CI with MongoDB service container)
 
 mod api;
-mod migration;

compliance-agent/tests/tenant_isolation.rs

@@ -11,7 +11,7 @@
 #![allow(clippy::expect_used, clippy::unwrap_used)]
 
 use compliance_agent::database::DatabasePool;
-use compliance_core::models::TrackedRepository;
+use compliance_core::models::{Artifact, OnboardedTarget, TargetType};
 use compliance_core::{OrgRole, TenantContext, TenantStatus};
 use mongodb::bson::doc;
 
@@ -28,27 +28,12 @@ fn ctx(tenant_id: &str, slug: &str) -> TenantContext {
     }
 }
 
-fn fixture_repo(name: &str, git_url: &str) -> TrackedRepository {
-    TrackedRepository {
-        id: None,
-        name: name.to_string(),
-        git_url: git_url.to_string(),
-        default_branch: "main".to_string(),
-        local_path: None,
-        scan_schedule: None,
-        webhook_enabled: false,
-        webhook_secret: None,
-        tracker_type: None,
-        tracker_owner: None,
-        tracker_repo: None,
-        tracker_token: None,
-        auth_token: None,
-        auth_username: None,
-        last_scanned_commit: None,
-        findings_count: 0,
-        created_at: chrono::Utc::now(),
-        updated_at: chrono::Utc::now(),
-    }
+fn fixture_repo(name: &str, git_url: &str) -> OnboardedTarget {
+    let mut target = OnboardedTarget::new(name.to_string(), TargetType::WebApp);
+    target
+        .artifacts
+        .push(Artifact::git_repo(git_url.to_string(), "main".to_string()));
+    target
 }
 
 #[tokio::test]
@@ -71,12 +56,12 @@ async fn pool_isolates_tenants_at_driver_level() {
 
     // Write distinct repos into each tenant's database.
     acme_db
-        .repositories()
+        .onboarded_targets()
         .insert_one(fixture_repo("acme-app", "git@example.com:acme/app.git"))
         .await
         .expect("insert acme");
     globex_db
-        .repositories()
+        .onboarded_targets()
         .insert_one(fixture_repo(
             "globex-platform",
             "git@example.com:globex/platform.git",
@@ -173,12 +158,12 @@ async fn admin_helpers_list_and_drop_tenant_dbs() {
     let acme_db = pool.for_tenant(&acme).await.expect("acme db");
     let globex_db = pool.for_tenant(&globex).await.expect("globex db");
     acme_db
-        .repositories()
+        .onboarded_targets()
         .insert_one(fixture_repo("acme-app", "git@example.com:acme/app.git"))
         .await
         .expect("insert acme");
     globex_db
-        .repositories()
+        .onboarded_targets()
         .insert_one(fixture_repo("globex-app", "git@example.com:globex/app.git"))
         .await
         .expect("insert globex");
@@ -284,9 +269,9 @@ fn short_id() -> String {
 }
 
 /// Drain a `repositories` find cursor on the given tenant database.
-async fn collect(db: &compliance_agent::database::Database) -> Vec<TrackedRepository> {
+async fn collect(db: &compliance_agent::database::Database) -> Vec<OnboardedTarget> {
     let mut cursor = db
-        .repositories()
+        .onboarded_targets()
         .find(doc! {})
         .await
         .expect("find repositories");

compliance-core/src/config.rs

@@ -49,11 +49,6 @@ pub struct AgentConfig {
     /// of tenants to iterate. When `None` or unreachable, scheduler
     /// falls back to `SCHEDULER_TENANT_IDS` env (M7.2-C).
     pub tenant_registry_url: Option<String>,
-    /// When true, `run_scan` dispatches to the unified `run_target` pipeline
-    /// (reads `onboarded_targets`) instead of the legacy repository pipeline.
-    /// Env `UNIFIED_PIPELINE`. Defaults on; set `UNIFIED_PIPELINE=0` to use the
-    /// legacy repository pipeline.
-    pub unified_pipeline: bool,
 }
 
 #[derive(Clone, Debug, Serialize, Deserialize)]

compliance-core/src/models/mod.rs

@@ -44,6 +44,6 @@ pub use pentest::{
     PentestStatus, PentestStrategy, SeverityDistribution, TestUserRecord, TesterInfo,
     ToolCallRecord,
 };
-pub use repository::{ScanTrigger, TrackedRepository};
+pub use repository::ScanTrigger;
 pub use sbom::{SbomEntry, VulnRef};
 pub use scan::{ScanPhase, ScanRun, ScanRunStatus, ScanType};

compliance-core/src/models/onboarding.rs

@@ -202,6 +202,9 @@ pub enum PlcFormat {
     PlcopenXml,
     /// IEC 61131-3 Structured Text source.
     StructuredText,
+    /// A CODESYS project archive (`.projectarchive` — a zip bundling the project
+    /// plus its referenced libraries and runtime; the source of the control-app SBOM).
+    ProjectArchive,
 }
 
 /// PLC-specific configuration for a [`ArtifactKind::PlcProject`] artifact.

compliance-core/src/models/repository.rs

@@ -1,8 +1,6 @@
-use chrono::{DateTime, Utc};
-use serde::{Deserialize, Deserializer, Serialize};
-
-use super::issue::TrackerType;
+use serde::{Deserialize, Serialize};
 
+/// What initiated a scan.
 #[derive(Debug, Clone, Serialize, Deserialize, PartialEq, Eq)]
 #[serde(rename_all = "snake_case")]
 pub enum ScanTrigger {
@@ -10,92 +8,3 @@ pub enum ScanTrigger {
     Webhook,
     Manual,
 }
-
-#[derive(Debug, Clone, Serialize, Deserialize)]
-pub struct TrackedRepository {
-    #[serde(rename = "_id", skip_serializing_if = "Option::is_none")]
-    pub id: Option<bson::oid::ObjectId>,
-    #[serde(default)]
-    pub name: String,
-    #[serde(default)]
-    pub git_url: String,
-    #[serde(default = "default_branch")]
-    pub default_branch: String,
-    pub local_path: Option<String>,
-    pub scan_schedule: Option<String>,
-    #[serde(default)]
-    pub webhook_enabled: bool,
-    /// Auto-generated HMAC secret for verifying incoming webhooks
-    #[serde(default, skip_serializing_if = "Option::is_none")]
-    pub webhook_secret: Option<String>,
-    pub tracker_type: Option<TrackerType>,
-    pub tracker_owner: Option<String>,
-    pub tracker_repo: Option<String>,
-    /// Optional per-repo PAT for the issue tracker (GitHub/GitLab/Jira)
-    #[serde(default, skip_serializing_if = "Option::is_none")]
-    pub tracker_token: Option<String>,
-    /// Optional auth token for HTTPS private repos (PAT or password)
-    #[serde(default, skip_serializing_if = "Option::is_none")]
-    pub auth_token: Option<String>,
-    /// Optional username for HTTPS auth (defaults to "x-access-token" for PATs)
-    #[serde(default, skip_serializing_if = "Option::is_none")]
-    pub auth_username: Option<String>,
-    pub last_scanned_commit: Option<String>,
-    #[serde(default, deserialize_with = "deserialize_findings_count")]
-    pub findings_count: u32,
-    #[serde(
-        default = "chrono::Utc::now",
-        with = "super::serde_helpers::bson_datetime"
-    )]
-    pub created_at: DateTime<Utc>,
-    #[serde(
-        default = "chrono::Utc::now",
-        with = "super::serde_helpers::bson_datetime"
-    )]
-    pub updated_at: DateTime<Utc>,
-}
-
-fn default_branch() -> String {
-    "main".to_string()
-}
-
-fn deserialize_findings_count<'de, D>(deserializer: D) -> Result<u32, D::Error>
-where
-    D: Deserializer<'de>,
-{
-    let bson = bson::Bson::deserialize(deserializer)?;
-    match &bson {
-        bson::Bson::Int32(n) => Ok(*n as u32),
-        bson::Bson::Int64(n) => Ok(*n as u32),
-        bson::Bson::Double(n) => Ok(*n as u32),
-        _ => Ok(0),
-    }
-}
-
-impl TrackedRepository {
-    pub fn new(name: String, git_url: String) -> Self {
-        let now = Utc::now();
-        // Generate a random webhook secret (hex-encoded UUID v4, no dashes)
-        let webhook_secret = uuid::Uuid::new_v4().to_string().replace('-', "");
-        Self {
-            id: None,
-            name,
-            git_url,
-            default_branch: "main".to_string(),
-            local_path: None,
-            scan_schedule: None,
-            auth_token: None,
-            auth_username: None,
-            webhook_enabled: false,
-            webhook_secret: Some(webhook_secret),
-            tracker_type: None,
-            tracker_owner: None,
-            tracker_repo: None,
-            tracker_token: None,
-            last_scanned_commit: None,
-            findings_count: 0,
-            created_at: now,
-            updated_at: now,
-        }
-    }
-}

compliance-core/src/models/scan.rs

@@ -24,6 +24,9 @@ pub enum ScanType {
     MobileStatic,
     /// Static analysis of a container image.
     ContainerScan,
+    /// Dynamic probing of a running PLC/SPS device over industrial protocols
+    /// (Modbus/TCP, OPC UA, …) for exposed/unauthenticated control access.
+    IcsProbe,
 }
 
 impl std::fmt::Display for ScanType {
@@ -43,6 +46,7 @@ impl std::fmt::Display for ScanType {
             Self::PlcControlLogic => write!(f, "plc_control_logic"),
             Self::MobileStatic => write!(f, "mobile_static"),
             Self::ContainerScan => write!(f, "container_scan"),
+            Self::IcsProbe => write!(f, "ics_probe"),
         }
     }
 }
@@ -76,6 +80,7 @@ pub enum ScanPhase {
     LlmTriage,
     IssueCreation,
     DastScanning,
+    IcsProbe,
     Completed,
 }
 

compliance-core/src/scan_matrix.rs

@@ -14,8 +14,12 @@ use crate::models::{ArtifactKind, OnboardedTarget, ScanType, TargetType};
 pub enum ArtifactRequirement {
     /// Source code — a git repo or a source archive.
     Code,
-    /// A reachable running instance (live URL / endpoint).
+    /// A reachable running instance (any live URL / endpoint, scheme-agnostic —
+    /// e.g. the ICS probe works off the host:port of a modbus:// or http:// ref).
     RunningUrl,
+    /// A reachable **web** endpoint — a live URL with an http(s) scheme. DAST is
+    /// an HTTP crawler, so a modbus:// / opc.tcp:// endpoint does not satisfy it.
+    HttpUrl,
     /// A firmware image / binary blob.
     Firmware,
     /// A PLC project (PLCopen XML or Structured Text).
@@ -134,7 +138,7 @@ fn sast_umbrella() -> Vec<ScanRule> {
 /// The rule set for a target type. Scans that are never applicable to a type are
 /// simply absent (e.g. DAST is not listed for a PLC target).
 pub fn rules_for(target_type: TargetType) -> Vec<ScanRule> {
-    use ArtifactRequirement::{Firmware, Mobile, Plc, RunningUrl};
+    use ArtifactRequirement::{Firmware, HttpUrl, Mobile, Plc, RunningUrl};
     match target_type {
         TargetType::WebApp | TargetType::BackendService => {
             let mut r = sast_umbrella();
@@ -142,7 +146,7 @@ pub fn rules_for(target_type: TargetType) -> Vec<ScanRule> {
                 ScanType::Dast,
                 true,
                 "Dynamic scan of the running endpoint",
-                RunningUrl,
+                HttpUrl,
             ));
             r
         }
@@ -203,16 +207,62 @@ pub fn rules_for(target_type: TargetType) -> Vec<ScanRule> {
                 ScanType::Dast,
                 false,
                 "Dynamic scan of exposed network services (if any)",
-                RunningUrl,
+                HttpUrl,
             ));
             r
         }
-        TargetType::PlcSps => vec![ScanRule::new(
-            ScanType::PlcControlLogic,
-            true,
-            "Control-logic security rules over the PLC program",
-            Plc,
-        )],
+        TargetType::PlcSps => {
+            // A PLC/SPS device is a composite: the control application *and* the
+            // device it runs on (firmware/OS + reachable runtime services). The
+            // control-logic scan runs on the PLC project; the firmware and DAST
+            // scans light up only when a firmware image / running endpoint is
+            // attached (e.g. a CODESYS runtime on a Yocto image with WebVisu).
+            // Firmware-image SBOM/CVE *execution* is shared with the firmware
+            // families and tracked in #151/#128; DAST over a WebVisu/OPC-UA
+            // endpoint uses the existing DAST path.
+            vec![
+                ScanRule::new(
+                    ScanType::PlcControlLogic,
+                    true,
+                    "Control-logic security rules over the PLC program",
+                    Plc,
+                ),
+                // Device-level scans are offered but opt-in (default-off): they
+                // apply only when a firmware image is attached, and firmware-image
+                // SBOM/CVE *execution* is shared with the firmware families and
+                // still landing (#151/#128), so they must not silently auto-run.
+                ScanRule::new(
+                    ScanType::FirmwareStatic,
+                    false,
+                    "Static analysis of the device firmware image (OS + runtime)",
+                    Firmware,
+                ),
+                ScanRule::new(
+                    ScanType::Sbom,
+                    false,
+                    "SBOM from the device firmware image (OS packages + CODESYS runtime)",
+                    Firmware,
+                ),
+                ScanRule::new(
+                    ScanType::Cve,
+                    false,
+                    "Match device firmware components against known CVEs",
+                    Firmware,
+                ),
+                ScanRule::new(
+                    ScanType::Dast,
+                    false,
+                    "Dynamic scan of the running device (WebVisu / exposed services)",
+                    HttpUrl,
+                ),
+                ScanRule::new(
+                    ScanType::IcsProbe,
+                    false,
+                    "Probe the running device over industrial protocols (Modbus/TCP, …)",
+                    RunningUrl,
+                ),
+            ]
+        }
     }
 }
 
@@ -229,6 +279,9 @@ pub fn supports_pentest(target_type: TargetType) -> bool {
             | TargetType::AndroidApp
             | TargetType::IosApp
             | TargetType::EmbeddedLinuxYocto
+            // A PLC/SPS device exposes reachable runtime services (WebVisu, OPC UA,
+            // the CODESYS programming protocol), so an active pentest applies.
+            | TargetType::PlcSps
     )
 }
 
@@ -236,7 +289,9 @@ pub fn supports_pentest(target_type: TargetType) -> bool {
 fn representative_kind(req: ArtifactRequirement) -> Option<ArtifactKind> {
     match req {
         ArtifactRequirement::Code => Some(ArtifactKind::GitRepo),
-        ArtifactRequirement::RunningUrl => Some(ArtifactKind::LiveUrl),
+        ArtifactRequirement::RunningUrl | ArtifactRequirement::HttpUrl => {
+            Some(ArtifactKind::LiveUrl)
+        }
         ArtifactRequirement::Firmware => Some(ArtifactKind::FirmwareImage),
         ArtifactRequirement::Plc => Some(ArtifactKind::PlcProject),
         ArtifactRequirement::Mobile => Some(ArtifactKind::MobilePackage),
@@ -245,13 +300,29 @@ fn representative_kind(req: ArtifactRequirement) -> Option<ArtifactKind> {
     }
 }
 
+/// Whether a live-URL reference is an http(s) web endpoint (vs. an industrial
+/// endpoint like `modbus://` / `opc.tcp://`, which DAST cannot crawl).
+fn is_http_url(source_ref: &str) -> bool {
+    let s = source_ref.trim();
+    s.starts_with("http://") || s.starts_with("https://")
+}
+
 /// Whether the target carries an artifact that satisfies the requirement.
 fn requirement_satisfied(req: ArtifactRequirement, target: &OnboardedTarget) -> bool {
     match req {
         ArtifactRequirement::Code => target.code_artifact().is_some(),
         ArtifactRequirement::RunningUrl => target.has(ArtifactKind::LiveUrl),
+        ArtifactRequirement::HttpUrl => target
+            .artifacts
+            .iter()
+            .any(|a| a.kind == ArtifactKind::LiveUrl && is_http_url(&a.source_ref)),
         ArtifactRequirement::Firmware => target.has(ArtifactKind::FirmwareImage),
-        ArtifactRequirement::Plc => target.has(ArtifactKind::PlcProject),
+        // A PLC project artifact, or a code artifact (git repo / source archive)
+        // holding the control logic as PLCopen XML / ST exports — the common way
+        // CODESYS projects are version-controlled.
+        ArtifactRequirement::Plc => {
+            target.has(ArtifactKind::PlcProject) || target.code_artifact().is_some()
+        }
         ArtifactRequirement::Mobile => target.has(ArtifactKind::MobilePackage),
         ArtifactRequirement::Container => target.has(ArtifactKind::ContainerImage),
         ArtifactRequirement::Any => true,
@@ -268,6 +339,10 @@ pub fn applicable_scans(target: &OnboardedTarget) -> Vec<ScanOption> {
             let required_artifact = representative_kind(rule.requires);
             let blocked_reason = if satisfied {
                 None
+            } else if rule.requires == ArtifactRequirement::HttpUrl {
+                // A live URL may be present but non-HTTP (e.g. modbus://): be
+                // specific so the user knows DAST needs a web endpoint.
+                Some("no http(s) live URL — DAST needs a web endpoint".to_string())
             } else {
                 Some(match required_artifact {
                     Some(kind) => format!("no {kind} artifact provided"),
@@ -340,22 +415,124 @@ mod tests {
     }
 
     #[test]
-    fn plc_offers_only_control_logic() {
+    fn plc_control_logic_is_default_on_and_device_scans_block_without_artifacts() {
+        // A PLC project alone: control-logic runs; the device-level scans are
+        // offered but blocked until a firmware image / running endpoint is added.
         let t = target_with(
             TargetType::PlcSps,
             vec![Artifact::plc_project("p.xml", PlcFormat::PlcopenXml)],
         );
         let opts = applicable_scans(&t);
-        assert_eq!(opts.len(), 1);
-        assert_eq!(opts[0].scan, ScanType::PlcControlLogic);
-        assert!(opts[0].default_on);
+        let plc = option(&opts, ScanType::PlcControlLogic).expect("control-logic offered");
+        assert!(plc.default_on && plc.blocked_reason.is_none());
+        for scan in [ScanType::FirmwareStatic, ScanType::Sbom, ScanType::Cve] {
+            let o = option(&opts, scan).expect("device scan offered");
+            assert!(
+                !o.default_on,
+                "{scan} must not pre-select without a firmware image"
+            );
+            assert!(o.blocked_reason.is_some());
+        }
+        let dast = option(&opts, ScanType::Dast).expect("dast offered");
+        assert!(!dast.default_on);
+        assert!(dast.blocked_reason.is_some());
+    }
+
+    #[test]
+    fn plc_control_logic_is_satisfied_by_a_git_repo() {
+        // A CODESYS project version-controlled in git (PLCopen XML / ST exports),
+        // no uploaded PlcProject artifact.
+        let t = target_with(TargetType::PlcSps, vec![Artifact::git_repo("u", "main")]);
+        let opts = applicable_scans(&t);
+        let plc = option(&opts, ScanType::PlcControlLogic).expect("control-logic offered");
+        assert!(
+            plc.default_on && plc.blocked_reason.is_none(),
+            "a git repo should satisfy PLC control-logic"
+        );
+    }
+
+    #[test]
+    fn plc_composite_lights_up_device_scans_with_firmware_and_url() {
+        // A CODESYS-on-Yocto device: PLC project + firmware image + WebVisu URL.
+        let t = target_with(
+            TargetType::PlcSps,
+            vec![
+                Artifact::plc_project("p.xml", PlcFormat::PlcopenXml),
+                Artifact::firmware_image("device.img"),
+                Artifact::live_url("http://plc.local/webvisu"),
+            ],
+        );
+        let opts = applicable_scans(&t);
+        for scan in [
+            ScanType::PlcControlLogic,
+            ScanType::FirmwareStatic,
+            ScanType::Sbom,
+            ScanType::Cve,
+        ] {
+            let o = option(&opts, scan).expect("scan offered");
+            assert!(o.blocked_reason.is_none(), "{scan} should be unblocked");
+        }
+        // Control-logic auto-runs; the device-level scans are unblocked but opt-in
+        // (default-off) until firmware-image execution lands (#151/#128).
+        assert!(option(&opts, ScanType::PlcControlLogic).unwrap().default_on);
+        assert!(!option(&opts, ScanType::Sbom).unwrap().default_on);
+        assert!(!option(&opts, ScanType::Dast).unwrap().default_on);
+        assert!(option(&opts, ScanType::Dast)
+            .unwrap()
+            .blocked_reason
+            .is_none());
+    }
+
+    #[test]
+    fn plc_with_modbus_url_offers_ics_probe_but_blocks_dast() {
+        // A soft-PLC reachable only over Modbus/TCP (no WebVisu). The ICS probe
+        // is applicable (it works off host:port), but DAST — an HTTP crawler —
+        // must be blocked so it isn't offered/run against a non-web endpoint.
+        let t = target_with(
+            TargetType::PlcSps,
+            vec![Artifact::live_url("modbus://plc-sim:502")],
+        );
+        let opts = applicable_scans(&t);
+        let ics = option(&opts, ScanType::IcsProbe).expect("ics probe offered");
+        assert!(
+            ics.blocked_reason.is_none(),
+            "ICS probe should be unblocked for a modbus:// endpoint"
+        );
+        assert!(!ics.default_on, "ICS probe stays opt-in (default-off)");
+        let dast = option(&opts, ScanType::Dast).expect("dast listed");
+        assert!(
+            dast.blocked_reason.is_some(),
+            "DAST must be blocked without an http(s) endpoint"
+        );
+        assert!(!dast.default_on);
+    }
+
+    #[test]
+    fn plc_with_http_webvisu_offers_both_dast_and_ics_probe() {
+        // A PLC exposing a WebVisu over HTTP: both DAST (web) and the ICS probe
+        // (OT ports on the same host) are applicable.
+        let t = target_with(
+            TargetType::PlcSps,
+            vec![Artifact::live_url("http://plc.local/webvisu")],
+        );
+        let opts = applicable_scans(&t);
+        assert!(option(&opts, ScanType::Dast)
+            .expect("dast offered")
+            .blocked_reason
+            .is_none());
+        assert!(option(&opts, ScanType::IcsProbe)
+            .expect("ics probe offered")
+            .blocked_reason
+            .is_none());
     }
 
     #[test]
     fn pentest_support_matches_reachable_families() {
         assert!(supports_pentest(TargetType::WebApp));
         assert!(supports_pentest(TargetType::BackendService));
-        assert!(!supports_pentest(TargetType::PlcSps));
+        assert!(supports_pentest(TargetType::EmbeddedLinuxYocto));
+        // A PLC/SPS device is network-reachable (WebVisu / OPC UA / 11740).
+        assert!(supports_pentest(TargetType::PlcSps));
         assert!(!supports_pentest(TargetType::FirmwareBareMetal));
         assert!(!supports_pentest(TargetType::DesktopApp));
     }

compliance-dashboard/src/app.rs

@@ -10,8 +10,6 @@ pub enum Route {
     #[layout(AppShell)]
         #[route("/")]
         OverviewPage {},
-        #[route("/repositories")]
-        RepositoriesPage {},
         #[route("/targets")]
         TargetsPage {},
         #[route("/onboard")]

compliance-dashboard/src/components/pentest_wizard.rs

@@ -4,8 +4,9 @@ use dioxus_free_icons::Icon;
 
 use crate::app::Route;
 use crate::infrastructure::dast::fetch_dast_targets;
+use crate::infrastructure::onboarding::fetch_targets;
 use crate::infrastructure::pentest::{create_pentest_session_wizard, lookup_repo_by_url};
-use crate::infrastructure::repositories::{fetch_repositories, fetch_ssh_public_key};
+use crate::infrastructure::repositories::fetch_ssh_public_key;
 
 const DISCLAIMER_TEXT: &str = "I confirm that I have authorization to perform security testing \
 against the specified target. I understand that penetration testing may cause disruption to the \
@@ -39,7 +40,7 @@ pub fn PentestWizard(show: Signal<bool>) -> Element {
     let mut show_target_dropdown = use_signal(|| false);
     let mut show_repo_dropdown = use_signal(|| false);
     let existing_targets = use_resource(|| async { fetch_dast_targets().await.ok() });
-    let existing_repos = use_resource(|| async { fetch_repositories(1).await.ok() });
+    let existing_repos = use_resource(|| async { fetch_targets().await.ok() });
 
     // SSH key state for private repos
     let mut ssh_public_key = use_signal(String::new);
@@ -211,7 +212,25 @@ pub fn PentestWizard(show: Signal<bool>) -> Element {
             Some(Some(data)) => data
                 .data
                 .iter()
-                .map(|r| (r.git_url.clone(), r.name.clone()))
+                .filter_map(|t| {
+                    let name = t
+                        .get("name")
+                        .and_then(|v| v.as_str())
+                        .unwrap_or_default()
+                        .to_string();
+                    let git_url = t
+                        .get("artifacts")
+                        .and_then(|a| a.as_array())
+                        .and_then(|arr| {
+                            arr.iter().find(|a| {
+                                a.get("kind").and_then(|k| k.as_str()) == Some("git_repo")
+                            })
+                        })
+                        .and_then(|a| a.get("source_ref"))
+                        .and_then(|s| s.as_str())?
+                        .to_string();
+                    Some((git_url, name))
+                })
                 .collect(),
             _ => Vec::new(),
         }

compliance-dashboard/src/infrastructure/database.rs

@@ -19,10 +19,6 @@ impl Database {
         Ok(Self { inner: db })
     }
 
-    pub fn repositories(&self) -> Collection<TrackedRepository> {
-        self.inner.collection("repositories")
-    }
-
     pub fn findings(&self) -> Collection<Finding> {
         self.inner.collection("findings")
     }

compliance-dashboard/src/infrastructure/onboarding.rs

@@ -39,6 +39,67 @@ pub struct ApplicableScansResponse {
     pub data: ApplicableScansData,
 }
 
+/// Validate a target name. The name is used as the clone directory downstream,
+/// so it must be a single safe segment (no slashes) and free of stray spaces.
+pub fn validate_target_name(name: &str) -> Option<String> {
+    let n = name.trim();
+    if n.is_empty() {
+        return Some("Enter a name".to_string());
+    }
+    if name != n {
+        return Some("Remove the leading/trailing spaces".to_string());
+    }
+    if n.contains('/') || n.contains('\\') {
+        return Some("No slashes — the name becomes a folder (e.g. stm32f411-blinky)".to_string());
+    }
+    None
+}
+
+/// Client-side validation of an artifact reference for its kind. Returns an
+/// error message when the value is obviously wrong for its category, so the
+/// wizard / editor can flag it up front instead of the scan discovering it.
+pub fn validate_artifact_ref(kind: &str, source_ref: &str) -> Option<String> {
+    let s = source_ref;
+    if s.trim().is_empty() {
+        return Some("Cannot be empty".to_string());
+    }
+    if s != s.trim() {
+        return Some("Remove the leading/trailing spaces".to_string());
+    }
+    let no_space = !s.contains(char::is_whitespace);
+    match kind {
+        "git_repo" => {
+            let looks_git = s.starts_with("https://")
+                || s.starts_with("http://")
+                || s.starts_with("ssh://")
+                || s.starts_with("git://")
+                || (s.contains('@') && s.contains(':'));
+            (!(looks_git && no_space))
+                .then(|| "Enter a git URL — https://…, ssh://…, or git@host:path".to_string())
+        }
+        "live_url" => {
+            // http(s) for web/DAST targets; modbus:// and opc.tcp:// for ICS
+            // devices probed by the ICS probe (e.g. modbus://plc:502).
+            let ok = (s.starts_with("https://")
+                || s.starts_with("http://")
+                || s.starts_with("modbus://")
+                || s.starts_with("opc.tcp://"))
+                && no_space;
+            (!ok).then(|| {
+                "Enter a URL — https://app.example.com, or modbus://host:502 for a PLC".to_string()
+            })
+        }
+        "container_image" => {
+            (!no_space).then(|| "Enter an image ref, e.g. registry/name:tag".to_string())
+        }
+        "source_archive" | "firmware_image" | "mobile_package" | "plc_project" => {
+            (!no_space).then(|| "Enter a path or URL (no spaces)".to_string())
+        }
+        // plaintext_description (and anything unknown): accept free-form text.
+        _ => None,
+    }
+}
+
 /// List onboarded targets.
 #[server]
 pub async fn fetch_targets() -> Result<TargetsResponse, ServerFnError> {
@@ -77,6 +138,94 @@ pub async fn create_target(
         .map_err(|e| ServerFnError::new(e.to_string()))
 }
 
+/// Upload a file artifact (PLC project, firmware image, source archive, mobile
+/// package) to a target — proxied to the agent as multipart.
+#[server]
+pub async fn upload_target_artifact(
+    id: String,
+    kind: String,
+    plc_format: Option<String>,
+    filename: String,
+    bytes: Vec<u8>,
+) -> Result<TargetResponse, ServerFnError> {
+    let mut form = reqwest::multipart::Form::new().text("kind", kind).part(
+        "file",
+        reqwest::multipart::Part::bytes(bytes).file_name(filename),
+    );
+    if let Some(pf) = plc_format {
+        form = form.text("plc_format", pf);
+    }
+    let resp = super::agent_client::agent_request(
+        reqwest::Method::POST,
+        &format!("/api/v1/targets/{id}/artifacts/upload"),
+    )
+    .await?
+    .multipart(form)
+    .send()
+    .await
+    .map_err(|e| ServerFnError::new(e.to_string()))?;
+    resp.json()
+        .await
+        .map_err(|e| ServerFnError::new(e.to_string()))
+}
+
+/// Update a target's name / type / artifacts (dashboard editor).
+#[server]
+pub async fn update_target(
+    id: String,
+    name: Option<String>,
+    target_type: Option<String>,
+    artifacts: Option<Vec<ArtifactInputDto>>,
+) -> Result<TargetResponse, ServerFnError> {
+    let mut body = serde_json::Map::new();
+    if let Some(n) = name {
+        body.insert("name".to_string(), serde_json::json!(n));
+    }
+    if let Some(t) = target_type {
+        body.insert("target_type".to_string(), serde_json::json!(t));
+    }
+    if let Some(a) = artifacts {
+        body.insert(
+            "artifacts".to_string(),
+            serde_json::to_value(a).map_err(|e| ServerFnError::new(e.to_string()))?,
+        );
+    }
+    let resp = super::agent_client::agent_request(
+        reqwest::Method::PATCH,
+        &format!("/api/v1/targets/{id}"),
+    )
+    .await?
+    .json(&serde_json::Value::Object(body))
+    .send()
+    .await
+    .map_err(|e| ServerFnError::new(e.to_string()))?;
+    resp.json()
+        .await
+        .map_err(|e| ServerFnError::new(e.to_string()))
+}
+
+/// Enable specific opt-in scans on a target by setting `scan_config.enabled_scans`.
+/// `scans` are serde scan-type names (lowercase, no underscores — e.g. `icsprobe`).
+#[server]
+pub async fn enable_target_scans(
+    id: String,
+    scans: Vec<String>,
+) -> Result<TargetResponse, ServerFnError> {
+    let body = serde_json::json!({ "scan_config": { "enabled_scans": scans } });
+    let resp = super::agent_client::agent_request(
+        reqwest::Method::PATCH,
+        &format!("/api/v1/targets/{id}"),
+    )
+    .await?
+    .json(&body)
+    .send()
+    .await
+    .map_err(|e| ServerFnError::new(e.to_string()))?;
+    resp.json()
+        .await
+        .map_err(|e| ServerFnError::new(e.to_string()))
+}
+
 /// Run kind-based classification on a target.
 #[server]
 pub async fn detect_target(id: String) -> Result<TargetResponse, ServerFnError> {

compliance-dashboard/src/infrastructure/repositories.rs

@@ -1,145 +1,10 @@
+//! The agent's SSH deploy public key — shown so a read-only deploy key can be
+//! added to private git targets. (The legacy repositories CRUD moved to the
+//! unified onboarding/targets API.)
+
 use dioxus::prelude::*;
-use serde::{Deserialize, Serialize};
-
-use compliance_core::models::TrackedRepository;
-
-#[derive(Debug, Clone, Serialize, Deserialize, Default)]
-pub struct RepositoryListResponse {
-    pub data: Vec<TrackedRepository>,
-    pub total: Option<u64>,
-    pub page: Option<u64>,
-}
-
-#[server]
-pub async fn fetch_repositories(page: u64) -> Result<RepositoryListResponse, ServerFnError> {
-    let path = format!("/api/v1/repositories?page={page}&limit=20");
-    let resp = super::agent_client::agent_get(&path)
-        .await?
-        .send()
-        .await
-        .map_err(|e| ServerFnError::new(e.to_string()))?;
-    let body: RepositoryListResponse = resp
-        .json()
-        .await
-        .map_err(|e| ServerFnError::new(e.to_string()))?;
-    Ok(body)
-}
-
-#[server]
-pub async fn add_repository(
-    name: String,
-    git_url: String,
-    default_branch: String,
-    auth_token: Option<String>,
-    auth_username: Option<String>,
-    tracker_type: Option<String>,
-    tracker_owner: Option<String>,
-    tracker_repo: Option<String>,
-    tracker_token: Option<String>,
-) -> Result<(), ServerFnError> {
-    let mut body = serde_json::json!({
-        "name": name,
-        "git_url": git_url,
-        "default_branch": default_branch,
-    });
-    if let Some(token) = auth_token.filter(|t| !t.is_empty()) {
-        body["auth_token"] = serde_json::Value::String(token);
-    }
-    if let Some(username) = auth_username.filter(|u| !u.is_empty()) {
-        body["auth_username"] = serde_json::Value::String(username);
-    }
-    if let Some(tt) = tracker_type.filter(|t| !t.is_empty()) {
-        body["tracker_type"] = serde_json::Value::String(tt);
-    }
-    if let Some(to) = tracker_owner.filter(|t| !t.is_empty()) {
-        body["tracker_owner"] = serde_json::Value::String(to);
-    }
-    if let Some(tr) = tracker_repo.filter(|t| !t.is_empty()) {
-        body["tracker_repo"] = serde_json::Value::String(tr);
-    }
-    if let Some(tk) = tracker_token.filter(|t| !t.is_empty()) {
-        body["tracker_token"] = serde_json::Value::String(tk);
-    }
-
-    let resp = super::agent_client::agent_request(reqwest::Method::POST, "/api/v1/repositories")
-        .await?
-        .json(&body)
-        .send()
-        .await
-        .map_err(|e| ServerFnError::new(e.to_string()))?;
-
-    if !resp.status().is_success() {
-        let body = resp.text().await.unwrap_or_default();
-        return Err(ServerFnError::new(format!(
-            "Failed to add repository: {body}"
-        )));
-    }
-
-    Ok(())
-}
-
-#[server]
-pub async fn update_repository(
-    repo_id: String,
-    name: Option<String>,
-    default_branch: Option<String>,
-    auth_token: Option<String>,
-    auth_username: Option<String>,
-    tracker_type: Option<String>,
-    tracker_owner: Option<String>,
-    tracker_repo: Option<String>,
-    tracker_token: Option<String>,
-    scan_schedule: Option<String>,
-) -> Result<(), ServerFnError> {
-    let mut body = serde_json::Map::new();
-    if let Some(v) = name.filter(|s| !s.is_empty()) {
-        body.insert("name".into(), serde_json::Value::String(v));
-    }
-    if let Some(v) = default_branch.filter(|s| !s.is_empty()) {
-        body.insert("default_branch".into(), serde_json::Value::String(v));
-    }
-    if let Some(v) = auth_token {
-        body.insert("auth_token".into(), serde_json::Value::String(v));
-    }
-    if let Some(v) = auth_username {
-        body.insert("auth_username".into(), serde_json::Value::String(v));
-    }
-    if let Some(v) = tracker_type {
-        body.insert("tracker_type".into(), serde_json::Value::String(v));
-    }
-    if let Some(v) = tracker_owner {
-        body.insert("tracker_owner".into(), serde_json::Value::String(v));
-    }
-    if let Some(v) = tracker_repo {
-        body.insert("tracker_repo".into(), serde_json::Value::String(v));
-    }
-    if let Some(v) = tracker_token {
-        body.insert("tracker_token".into(), serde_json::Value::String(v));
-    }
-    if let Some(v) = scan_schedule {
-        body.insert("scan_schedule".into(), serde_json::Value::String(v));
-    }
-
-    let resp = super::agent_client::agent_request(
-        reqwest::Method::PATCH,
-        &format!("/api/v1/repositories/{repo_id}"),
-    )
-    .await?
-    .json(&body)
-    .send()
-    .await
-    .map_err(|e| ServerFnError::new(e.to_string()))?;
-
-    if !resp.status().is_success() {
-        let text = resp.text().await.unwrap_or_default();
-        return Err(ServerFnError::new(format!(
-            "Failed to update repository: {text}"
-        )));
-    }
-
-    Ok(())
-}
 
+/// Fetch the agent's SSH deploy public key.
 #[server]
 pub async fn fetch_ssh_public_key() -> Result<String, ServerFnError> {
     let resp = super::agent_client::agent_get("/api/v1/settings/ssh-public-key")
@@ -163,86 +28,3 @@ pub async fn fetch_ssh_public_key() -> Result<String, ServerFnError> {
         .unwrap_or("")
         .to_string())
 }
-
-#[server]
-pub async fn delete_repository(repo_id: String) -> Result<(), ServerFnError> {
-    let resp = super::agent_client::agent_request(
-        reqwest::Method::DELETE,
-        &format!("/api/v1/repositories/{repo_id}"),
-    )
-    .await?
-    .send()
-    .await
-    .map_err(|e| ServerFnError::new(e.to_string()))?;
-
-    if !resp.status().is_success() {
-        let body = resp.text().await.unwrap_or_default();
-        return Err(ServerFnError::new(format!(
-            "Failed to delete repository: {body}"
-        )));
-    }
-
-    Ok(())
-}
-
-#[server]
-pub async fn trigger_repo_scan(repo_id: String) -> Result<(), ServerFnError> {
-    super::agent_client::agent_request(
-        reqwest::Method::POST,
-        &format!("/api/v1/repositories/{repo_id}/scan"),
-    )
-    .await?
-    .send()
-    .await
-    .map_err(|e| ServerFnError::new(e.to_string()))?;
-
-    Ok(())
-}
-
-#[derive(Debug, Clone, Serialize, Deserialize, Default)]
-pub struct WebhookConfigResponse {
-    pub webhook_secret: Option<String>,
-    pub tracker_type: String,
-}
-
-#[server]
-pub async fn fetch_webhook_config(repo_id: String) -> Result<WebhookConfigResponse, ServerFnError> {
-    let resp =
-        super::agent_client::agent_get(&format!("/api/v1/repositories/{repo_id}/webhook-config"))
-            .await?
-            .send()
-            .await
-            .map_err(|e| ServerFnError::new(e.to_string()))?;
-    let body: WebhookConfigResponse = resp
-        .json()
-        .await
-        .map_err(|e| ServerFnError::new(e.to_string()))?;
-    Ok(body)
-}
-
-/// Check if a repository has any running scans
-#[server]
-pub async fn check_repo_scanning(repo_id: String) -> Result<bool, ServerFnError> {
-    let resp = super::agent_client::agent_get("/api/v1/scan-runs?page=1&limit=1")
-        .await?
-        .send()
-        .await
-        .map_err(|e| ServerFnError::new(e.to_string()))?;
-    let body: serde_json::Value = resp
-        .json()
-        .await
-        .map_err(|e| ServerFnError::new(e.to_string()))?;
-
-    // Check if the most recent scan for this repo is still running
-    if let Some(scans) = body.get("data").and_then(|d| d.as_array()) {
-        for scan in scans {
-            let scan_repo = scan.get("repo_id").and_then(|v| v.as_str()).unwrap_or("");
-            let status = scan.get("status").and_then(|v| v.as_str()).unwrap_or("");
-            if scan_repo == repo_id && status == "running" {
-                return Ok(true);
-            }
-        }
-    }
-
-    Ok(false)
-}

compliance-dashboard/src/infrastructure/server.rs

@@ -1,3 +1,4 @@
+use axum::extract::DefaultBodyLimit;
 use axum::routing::{get, post};
 use axum::{middleware, Extension};
 use dioxus::prelude::*;
@@ -66,6 +67,9 @@ pub fn server_start(app: fn() -> Element) -> Result<(), DashboardError> {
                 // Webhook proxy: forward to agent (no auth required)
                 .route("/webhook/{platform}/{repo_id}", post(webhook_proxy))
                 .serve_dioxus_application(ServeConfig::new(), app)
+                // Allow large artifact uploads through the upload server function
+                // (PLC .projectarchive, firmware, mobile) — default is 2 MiB.
+                .layer(DefaultBodyLimit::max(512 * 1024 * 1024))
                 .layer(Extension(PendingOAuthStore::default()))
                 .layer(middleware::from_fn(require_auth))
                 .layer(Extension(server_state))

compliance-dashboard/src/pages/chat_index.rs

@@ -2,11 +2,11 @@ use dioxus::prelude::*;
 
 use crate::app::Route;
 use crate::components::page_header::PageHeader;
-use crate::infrastructure::repositories::fetch_repositories;
+use crate::infrastructure::onboarding::fetch_targets;
 
 #[component]
 pub fn ChatIndexPage() -> Element {
-    let repos = use_resource(|| async { fetch_repositories(1).await.ok() });
+    let repos = use_resource(|| async { fetch_targets().await.ok() });
 
     rsx! {
         PageHeader {
@@ -28,10 +28,32 @@ pub fn ChatIndexPage() -> Element {
                         div { class: "graph-index-grid",
                             for repo in repo_list {
                                 {
-                                    let repo_id = repo.id.map(|id| id.to_hex()).unwrap_or_default();
-                                    let name = repo.name.clone();
-                                    let url = repo.git_url.clone();
-                                    let branch = repo.default_branch.clone();
+                                    let repo_id = repo.get("_id").and_then(|o| o.get("$oid")).and_then(|s| s.as_str()).unwrap_or_default().to_string();
+                                    let name = repo.get("name").and_then(|n| n.as_str()).unwrap_or_default().to_string();
+                                    let url = repo
+                                        .get("artifacts")
+                                        .and_then(|a| a.as_array())
+                                        .and_then(|arr| {
+                                            arr.iter().find(|a| {
+                                                a.get("kind").and_then(|k| k.as_str()) == Some("git_repo")
+                                            })
+                                        })
+                                        .and_then(|a| a.get("source_ref"))
+                                        .and_then(|s| s.as_str())
+                                        .unwrap_or_default()
+                                        .to_string();
+                                    let branch = repo
+                                        .get("artifacts")
+                                        .and_then(|a| a.as_array())
+                                        .and_then(|arr| {
+                                            arr.iter().find_map(|a| {
+                                                a.get("git")
+                                                    .and_then(|g| g.get("default_branch"))
+                                                    .and_then(|b| b.as_str())
+                                            })
+                                        })
+                                        .unwrap_or("main")
+                                        .to_string();
                                     rsx! {
                                         Link {
                                             to: Route::ChatPage { repo_id },

compliance-dashboard/src/pages/graph_index.rs

@@ -2,11 +2,11 @@ use dioxus::prelude::*;
 
 use crate::app::Route;
 use crate::components::page_header::PageHeader;
-use crate::infrastructure::repositories::fetch_repositories;
+use crate::infrastructure::onboarding::fetch_targets;
 
 #[component]
 pub fn GraphIndexPage() -> Element {
-    let repos = use_resource(|| async { fetch_repositories(1).await.ok() });
+    let repos = use_resource(|| async { fetch_targets().await.ok() });
 
     rsx! {
         PageHeader {
@@ -28,27 +28,34 @@ pub fn GraphIndexPage() -> Element {
                         div { class: "graph-index-grid",
                             for repo in repo_list {
                                 {
-                                    let repo_id = repo.id.map(|id| id.to_hex()).unwrap_or_default();
-                                    let name = repo.name.clone();
-                                    let url = repo.git_url.clone();
-                                    let branch = repo.default_branch.clone();
-                                    let findings = repo.findings_count;
+                                    let repo_id = repo.get("_id").and_then(|o| o.get("$oid")).and_then(|s| s.as_str()).unwrap_or_default().to_string();
+                                    let name = repo.get("name").and_then(|n| n.as_str()).unwrap_or_default().to_string();
+                                    let url = repo
+                                        .get("artifacts")
+                                        .and_then(|a| a.as_array())
+                                        .and_then(|arr| {
+                                            arr.iter().find(|a| {
+                                                a.get("kind").and_then(|k| k.as_str()) == Some("git_repo")
+                                            })
+                                        })
+                                        .and_then(|a| a.get("source_ref"))
+                                        .and_then(|s| s.as_str())
+                                        .unwrap_or_default()
+                                        .to_string();
+                                    let branch = repo
+                                        .get("artifacts")
+                                        .and_then(|a| a.as_array())
+                                        .and_then(|arr| {
+                                            arr.iter().find_map(|a| {
+                                                a.get("git")
+                                                    .and_then(|g| g.get("default_branch"))
+                                                    .and_then(|b| b.as_str())
+                                            })
+                                        })
+                                        .unwrap_or("main")
+                                        .to_string();
+                                    let findings = repo.get("findings_count").and_then(|n| n.as_u64()).unwrap_or(0);
                                     let findings_label = if findings != 1 { format!("{findings} findings") } else { "1 finding".to_string() };
-                                    let updated = {
-                                        let now = chrono::Utc::now();
-                                        let diff = now.signed_duration_since(repo.updated_at);
-                                        if diff.num_minutes() < 1 {
-                                            "just now".to_string()
-                                        } else if diff.num_hours() < 1 {
-                                            format!("{}m ago", diff.num_minutes())
-                                        } else if diff.num_days() < 1 {
-                                            format!("{}h ago", diff.num_hours())
-                                        } else if diff.num_days() < 30 {
-                                            format!("{}d ago", diff.num_days())
-                                        } else {
-                                            repo.updated_at.format("%Y-%m-%d").to_string()
-                                        }
-                                    };
                                     rsx! {
                                         Link {
                                             to: Route::GraphExplorerPage { repo_id },
@@ -67,9 +74,6 @@ pub fn GraphIndexPage() -> Element {
                                                 span { class: "graph-repo-card-tag graph-repo-card-tag-findings",
                                                     "{findings_label}"
                                                 }
-                                                span { class: "graph-repo-card-tag",
-                                                    "Updated {updated}"
-                                                }
                                             }
                                         }
                                     }

compliance-dashboard/src/pages/mod.rs

@@ -16,7 +16,6 @@ pub mod onboarding;
 pub mod overview;
 pub mod pentest_dashboard;
 pub mod pentest_session;
-pub mod repositories;
 pub mod sbom;
 pub mod targets;
 
@@ -38,6 +37,5 @@ pub use onboarding::OnboardingPage;
 pub use overview::OverviewPage;
 pub use pentest_dashboard::PentestDashboardPage;
 pub use pentest_session::PentestSessionPage;
-pub use repositories::RepositoriesPage;
 pub use sbom::SbomPage;
 pub use targets::TargetsPage;

compliance-dashboard/src/pages/onboarding.rs

@@ -2,7 +2,8 @@ use dioxus::prelude::*;
 
 use crate::components::page_header::PageHeader;
 use crate::infrastructure::onboarding::{
-    create_target, detect_target, fetch_applicable_scans, trigger_target_scan, ArtifactInputDto,
+    create_target, detect_target, enable_target_scans, fetch_applicable_scans, trigger_target_scan,
+    upload_target_artifact, validate_artifact_ref, validate_target_name, ArtifactInputDto,
 };
 
 /// (value, label, one-line description) for the 9 target families.
@@ -40,6 +41,23 @@ const ARTIFACT_KINDS: &[(&str, &str)] = &[
 
 const STEP_LABELS: &[&str] = &["Target type", "Artifacts", "Review", "Done"];
 
+/// Artifact kinds provided as an uploaded file (rather than a URL/text ref).
+fn is_file_kind(kind: &str) -> bool {
+    matches!(
+        kind,
+        "plc_project" | "firmware_image" | "source_archive" | "mobile_package"
+    )
+}
+
+/// A file artifact staged in the wizard, uploaded after the target is created.
+#[derive(Clone, PartialEq)]
+struct PendingFile {
+    kind: String,
+    plc_format: Option<String>,
+    filename: String,
+    bytes: Vec<u8>,
+}
+
 /// One row in the applicable-scans list on the success step.
 #[component]
 fn ScanRow(scan: serde_json::Value) -> Element {
@@ -107,6 +125,10 @@ pub fn OnboardingPage() -> Element {
     let mut new_kind = use_signal(|| "git_repo".to_string());
     let mut new_source = use_signal(String::new);
     let mut new_branch = use_signal(|| "main".to_string());
+    // File-upload artifacts (PLC project, firmware image, ...).
+    let mut new_plc_format = use_signal(|| "plcopen_xml".to_string());
+    let mut new_file = use_signal(|| Option::<(String, Vec<u8>)>::None);
+    let mut pending_files = use_signal(Vec::<PendingFile>::new);
 
     // Create + result state.
     let mut creating = use_signal(|| false);
@@ -115,10 +137,41 @@ pub fn OnboardingPage() -> Element {
     let mut suggested = use_signal(|| Option::<String>::None);
     let mut created_id = use_signal(|| Option::<String>::None);
     let mut scan_msg = use_signal(|| Option::<String>::None);
+    // Opt-in scans (default-off but unblocked) the user ticks to enable before
+    // running — stored as serde scan-type names (lowercase, no underscores).
+    let mut enabled_extra = use_signal(Vec::<String>::new);
 
     let step_now = step();
-    let can_advance_type = !name().trim().is_empty() && !target_type().trim().is_empty();
-    let has_artifacts = !artifacts().is_empty();
+    let name_error = validate_target_name(&name());
+    let can_advance_type = name_error.is_none() && !target_type().trim().is_empty();
+    let has_artifacts = !artifacts().is_empty() || !pending_files().is_empty();
+    // Opt-in scans: applicable + unblocked, but default-off (e.g. the ICS probe).
+    // The user ticks these to enable them before the first run. Each entry is
+    // (display name for the label, serde scan-type name for the enable call —
+    // lowercase, no underscores, matching ScanType's rename_all = "lowercase").
+    let optin_scans: Vec<(String, String)> = scans()
+        .iter()
+        .filter_map(|s| {
+            let unblocked = s.get("blocked_reason").and_then(|v| v.as_str()).is_none();
+            let default_on = s
+                .get("default_on")
+                .and_then(|v| v.as_bool())
+                .unwrap_or(false);
+            if unblocked && !default_on {
+                let display = s.get("scan").and_then(|v| v.as_str())?.to_string();
+                let serde_name = display.replace('_', "");
+                Some((display, serde_name))
+            } else {
+                None
+            }
+        })
+        .collect();
+    // Live validation of the artifact reference being typed (empty = no error yet).
+    let new_source_error = if new_source().is_empty() {
+        None
+    } else {
+        validate_artifact_ref(&new_kind(), &new_source())
+    };
 
     rsx! {
         PageHeader {
@@ -157,6 +210,11 @@ pub fn OnboardingPage() -> Element {
                             value: "{name}",
                             oninput: move |e| name.set(e.value()),
                         }
+                        if !name().is_empty() {
+                            if let Some(err) = name_error.clone() {
+                                div { style: "color: var(--danger, #d33); font-size: 0.85em; margin-top: 4px;", "{err}" }
+                            }
+                        }
                     }
                     div {
                         style: "display: grid; grid-template-columns: repeat(auto-fill, minmax(200px, 1fr)); gap: 12px; margin-top: 12px;",
@@ -180,6 +238,36 @@ pub fn OnboardingPage() -> Element {
             // ---- Step 1: artifacts ----
             if step_now == 1 {
                 div { class: "card-header", "Attach artifacts" }
+                if target_type() == "plc_sps" {
+                    div {
+                        style: "margin: 12px 16px 0; padding: 12px 14px; border-left: 3px solid var(--accent, #3b82f6); background: var(--surface-2, rgba(59,130,246,0.08)); font-size: 0.88em; line-height: 1.55;",
+                        div { style: "font-weight: 600; margin-bottom: 4px;", "CODESYS / PLC projects" }
+                        "Attach a "
+                        b { "PLC project" }
+                        " (PLCopen XML / ST, or a .projectarchive), or a "
+                        b { "Git repository" }
+                        " of exported source — every scan is then just a pull."
+                        ul { style: "margin: 6px 0 0; padding-left: 18px;",
+                            li {
+                                b { "Control-logic SAST" }
+                                " — commit "
+                                b { "PLCopen XML exports" }
+                                " (Project → Export PLCopenXML) or raw .st; ST and graphical FBD/LD are both analyzed."
+                            }
+                            li {
+                                b { "Library + runtime SBOM" }
+                                " — include the "
+                                b { ".projectarchive" }
+                                "; PLCopen XML alone carries no libraries."
+                            }
+                            li {
+                                "Avoid committing only the binary "
+                                code { ".project" }
+                                " — it can't be parsed and doesn't diff."
+                            }
+                        }
+                    }
+                }
                 div { style: "padding: 16px;",
                     div { style: "display: flex; gap: 8px; flex-wrap: wrap; align-items: flex-end;",
                         div { class: "form-group", style: "margin: 0;",
@@ -192,41 +280,141 @@ pub fn OnboardingPage() -> Element {
                                 }
                             }
                         }
-                        div { class: "form-group", style: "margin: 0; flex: 1; min-width: 240px;",
-                            label { "Reference (URL / path / text)" }
-                            input {
-                                r#type: "text",
-                                placeholder: "https://git.example.com/acme.git",
-                                value: "{new_source}",
-                                oninput: move |e| new_source.set(e.value()),
+                        if is_file_kind(&new_kind()) {
+                            div { class: "form-group", style: "margin: 0; flex: 1; min-width: 240px;",
+                                label { "File" }
+                                input {
+                                    r#type: "file",
+                                    onchange: move |evt| {
+                                        let Some(file) = evt.files().into_iter().next() else { return; };
+                                        let name = file.name();
+                                        // Auto-detect the PLC format from the file extension.
+                                        let lname = name.to_ascii_lowercase();
+                                        if lname.ends_with(".projectarchive") || lname.ends_with(".project") {
+                                            new_plc_format.set("project_archive".to_string());
+                                        } else if lname.ends_with(".xml") || lname.ends_with(".plcopen") {
+                                            new_plc_format.set("plcopen_xml".to_string());
+                                        } else if lname.ends_with(".st") || lname.ends_with(".exp") || lname.ends_with(".scl") {
+                                            new_plc_format.set("structured_text".to_string());
+                                        }
+                                        spawn(async move {
+                                            if let Ok(bytes) = file.read_bytes().await {
+                                                new_file.set(Some((name, bytes.to_vec())));
+                                            }
+                                        });
+                                    },
+                                }
                             }
-                        }
-                        if new_kind() == "git_repo" {
-                            div { class: "form-group", style: "margin: 0;",
-                                label { "Branch" }
+                            if new_kind() == "plc_project" {
+                                div { class: "form-group", style: "margin: 0;",
+                                    label { "Format" }
+                                    select {
+                                        value: "{new_plc_format}",
+                                        oninput: move |e| new_plc_format.set(e.value()),
+                                        option {
+                                            value: "plcopen_xml",
+                                            selected: new_plc_format() == "plcopen_xml",
+                                            "PLCopen XML",
+                                        }
+                                        option {
+                                            value: "structured_text",
+                                            selected: new_plc_format() == "structured_text",
+                                            "Structured Text",
+                                        }
+                                        option {
+                                            value: "project_archive",
+                                            selected: new_plc_format() == "project_archive",
+                                            "Project archive (.projectarchive)",
+                                        }
+                                    }
+                                }
+                            }
+                            button {
+                                class: "btn btn-secondary",
+                                disabled: new_file().is_none(),
+                                onclick: move |_| {
+                                    if let Some((fname, data)) = new_file() {
+                                        let kind = new_kind();
+                                        let plc_format = if kind == "plc_project" {
+                                            Some(new_plc_format())
+                                        } else {
+                                            None
+                                        };
+                                        pending_files.write().push(PendingFile {
+                                            kind,
+                                            plc_format,
+                                            filename: fname,
+                                            bytes: data,
+                                        });
+                                        new_file.set(None);
+                                    }
+                                },
+                                "+ Add file"
+                            }
+                        } else {
+                            div { class: "form-group", style: "margin: 0; flex: 1; min-width: 240px;",
+                                label { "Reference (URL / path / text)" }
                                 input {
                                     r#type: "text",
-                                    value: "{new_branch}",
-                                    oninput: move |e| new_branch.set(e.value()),
+                                    placeholder: "https://git.example.com/acme.git",
+                                    value: "{new_source}",
+                                    oninput: move |e| new_source.set(e.value()),
                                 }
                             }
-                        }
-                        button {
-                            class: "btn btn-secondary",
-                            onclick: move |_| {
-                                let kind = new_kind();
-                                if !new_source().trim().is_empty() {
-                                    let branch = if kind == "git_repo" { Some(new_branch()) } else { None };
-                                    artifacts.write().push(ArtifactInputDto {
-                                        kind,
-                                        source_ref: new_source(),
-                                        branch,
-                                        plc_format: None,
-                                    });
-                                    new_source.set(String::new());
+                            if new_kind() == "git_repo" {
+                                div { class: "form-group", style: "margin: 0;",
+                                    label { "Branch" }
+                                    input {
+                                        r#type: "text",
+                                        value: "{new_branch}",
+                                        oninput: move |e| new_branch.set(e.value()),
+                                    }
                                 }
-                            },
-                            "+ Add"
+                            }
+                            button {
+                                class: "btn btn-secondary",
+                                disabled: new_source().trim().is_empty() || new_source_error.is_some(),
+                                onclick: move |_| {
+                                    let kind = new_kind();
+                                    if !new_source().trim().is_empty()
+                                        && validate_artifact_ref(&kind, &new_source()).is_none()
+                                    {
+                                        let branch = if kind == "git_repo" { Some(new_branch()) } else { None };
+                                        artifacts.write().push(ArtifactInputDto {
+                                            kind,
+                                            source_ref: new_source(),
+                                            branch,
+                                            plc_format: None,
+                                        });
+                                        new_source.set(String::new());
+                                    }
+                                },
+                                "+ Add"
+                            }
+                        }
+                    }
+                    if is_file_kind(&new_kind()) {
+                        if let Some((fname, data)) = new_file() {
+                            div { style: "font-size: 0.85em; opacity: 0.7; margin-top: 6px;",
+                                "Selected: {fname} ({data.len()} bytes)"
+                            }
+                        }
+                    } else if let Some(err) = new_source_error.clone() {
+                        div { style: "color: var(--danger, #d33); font-size: 0.85em; margin-top: 6px;", "{err}" }
+                    }
+                    // Staged file artifacts (uploaded after the target is created).
+                    for (i, pf) in pending_files().iter().enumerate() {
+                        div {
+                            style: "display: flex; justify-content: space-between; align-items: center; padding: 8px 12px; border: 1px solid var(--border, #333); border-radius: 6px; margin-top: 6px;",
+                            span {
+                                span { style: "opacity: 0.7;", "{kind_label(&pf.kind)} (file): " }
+                                "{pf.filename} ({pf.bytes.len()} bytes)"
+                            }
+                            button {
+                                class: "btn btn-ghost-danger btn-sm",
+                                onclick: move |_| { pending_files.write().remove(i); },
+                                "Remove"
+                            }
                         }
                     }
 
@@ -292,6 +480,39 @@ pub fn OnboardingPage() -> Element {
                             ScanRow { scan: s }
                         }
                     }
+                    if !optin_scans.is_empty() {
+                        div { style: "margin-top: 12px; padding: 10px; border: 1px dashed var(--border, #ccc); border-radius: 6px;",
+                            div { style: "font-weight: 600; margin-bottom: 6px;", "Enable opt-in scans" }
+                            div { style: "opacity: 0.7; font-size: 0.85em; margin-bottom: 8px;",
+                                "These are applicable but off by default (they touch a live device). Tick to enable before running."
+                            }
+                            for pair in optin_scans.clone() {
+                                {
+                                    let (display, serde_name) = pair;
+                                    let cb_name = serde_name.clone();
+                                    rsx! {
+                                        label {
+                                            style: "display: flex; gap: 6px; align-items: center; margin-top: 4px;",
+                                            input {
+                                                r#type: "checkbox",
+                                                checked: enabled_extra().contains(&serde_name),
+                                                onchange: move |_| {
+                                                    let mut v = enabled_extra();
+                                                    if let Some(p) = v.iter().position(|x| x == &cb_name) {
+                                                        v.remove(p);
+                                                    } else {
+                                                        v.push(cb_name.clone());
+                                                    }
+                                                    enabled_extra.set(v);
+                                                },
+                                            }
+                                            "Enable {display}"
+                                        }
+                                    }
+                                }
+                            }
+                        }
+                    }
                     if let Some(msg) = scan_msg() {
                         div { style: "margin-top: 8px; color: var(--success, #2a2);", "{msg}" }
                     }
@@ -300,8 +521,21 @@ pub fn OnboardingPage() -> Element {
                             class: "btn btn-primary",
                             onclick: move |_| {
                                 if let Some(id) = created_id() {
+                                    let extra = enabled_extra();
                                     scan_msg.set(Some("Scan triggered...".to_string()));
                                     spawn(async move {
+                                        // Persist any ticked opt-in scans first, so the
+                                        // agent's build_scan_plan includes them this run.
+                                        if !extra.is_empty() {
+                                            if let Err(e) =
+                                                enable_target_scans(id.clone(), extra).await
+                                            {
+                                                scan_msg.set(Some(format!(
+                                                    "Failed to enable opt-in scans: {e}"
+                                                )));
+                                                return;
+                                            }
+                                        }
                                         match trigger_target_scan(id).await {
                                             Ok(_) => scan_msg.set(Some(
                                                 "Scan started — findings will appear as it runs.".to_string(),
@@ -321,6 +555,8 @@ pub fn OnboardingPage() -> Element {
                                 target_type.set(String::new());
                                 description.set(String::new());
                                 artifacts.write().clear();
+                                pending_files.write().clear();
+                                new_file.set(None);
                                 scans.write().clear();
                                 suggested.set(None);
                                 created_id.set(None);
@@ -359,6 +595,7 @@ pub fn OnboardingPage() -> Element {
                             let tt = target_type();
                             let desc = description();
                             let arts = artifacts();
+                            let files = pending_files();
                             let d = if desc.trim().is_empty() { None } else { Some(desc) };
                             creating.set(true);
                             error.set(None);
@@ -373,6 +610,23 @@ pub fn OnboardingPage() -> Element {
                                             .map(String::from);
                                         if let Some(id) = id {
                                             created_id.set(Some(id.clone()));
+                                            // Upload staged file artifacts now that the target exists.
+                                            for pf in files {
+                                                let fname = pf.filename.clone();
+                                                if let Err(e) = upload_target_artifact(
+                                                    id.clone(),
+                                                    pf.kind,
+                                                    pf.plc_format,
+                                                    pf.filename,
+                                                    pf.bytes,
+                                                )
+                                                .await
+                                                {
+                                                    error.set(Some(format!(
+                                                        "Upload failed for {fname}: {e}"
+                                                    )));
+                                                }
+                                            }
                                             if let Ok(sc) = fetch_applicable_scans(id.clone()).await {
                                                 scans.set(sc.data.scans);
                                             }

compliance-dashboard/src/pages/overview.rs

@@ -6,7 +6,7 @@ use crate::app::Route;
 use crate::components::page_header::PageHeader;
 use crate::components::stat_card::StatCard;
 use crate::infrastructure::mcp::fetch_mcp_servers;
-use crate::infrastructure::repositories::fetch_repositories;
+use crate::infrastructure::onboarding::fetch_targets;
 
 #[cfg(feature = "server")]
 use crate::infrastructure::stats::fetch_overview_stats;
@@ -26,7 +26,7 @@ pub fn OverviewPage() -> Element {
         }
     });
 
-    let repos = use_resource(|| async { fetch_repositories(1).await.ok() });
+    let repos = use_resource(|| async { fetch_targets().await.ok() });
     let mcp_servers = use_resource(|| async { fetch_mcp_servers().await.ok() });
 
     rsx! {
@@ -94,8 +94,8 @@ pub fn OverviewPage() -> Element {
                                         style: "display: grid; grid-template-columns: repeat(3, 1fr); gap: 1rem; padding: 1rem;",
                                         for repo in repo_list {
                                             {
-                                                let repo_id = repo.id.map(|id| id.to_hex()).unwrap_or_default();
-                                                let name = repo.name.clone();
+                                                let repo_id = repo.get("_id").and_then(|o| o.get("$oid")).and_then(|s| s.as_str()).unwrap_or_default().to_string();
+                                                let name = repo.get("name").and_then(|n| n.as_str()).unwrap_or_default().to_string();
                                                 rsx! {
                                                     Link {
                                                         to: Route::ChatPage { repo_id },

compliance-dashboard/src/pages/repositories.rs

@@ -1,428 +0,0 @@
-use dioxus::prelude::*;
-use dioxus_free_icons::icons::bs_icons::*;
-#[allow(unused_imports)]
-use dioxus_free_icons::icons::bs_icons::{BsGear, BsPencil};
-use dioxus_free_icons::Icon;
-
-use crate::components::page_header::PageHeader;
-use crate::components::pagination::Pagination;
-use crate::components::toast::{ToastType, Toasts};
-use crate::pages::graph_explorer::GraphExplorerInline;
-
-async fn async_sleep_5s() {
-    #[cfg(feature = "web")]
-    {
-        gloo_timers::future::TimeoutFuture::new(5_000).await;
-    }
-    #[cfg(not(feature = "web"))]
-    {
-        tokio::time::sleep(std::time::Duration::from_secs(5)).await;
-    }
-}
-
-#[component]
-pub fn RepositoriesPage() -> Element {
-    let mut page = use_signal(|| 1u64);
-    let mut toasts = use_context::<Toasts>();
-    let mut confirm_delete = use_signal(|| Option::<(String, String)>::None); // (id, name)
-    let mut edit_repo_id = use_signal(|| Option::<String>::None);
-    let mut edit_name = use_signal(String::new);
-    let mut edit_branch = use_signal(String::new);
-    let mut edit_tracker_type = use_signal(String::new);
-    let mut edit_tracker_owner = use_signal(String::new);
-    let mut edit_tracker_repo = use_signal(String::new);
-    let mut edit_tracker_token = use_signal(String::new);
-    let mut edit_saving = use_signal(|| false);
-    let mut edit_webhook_secret = use_signal(|| Option::<String>::None);
-    let mut edit_webhook_tracker = use_signal(String::new);
-    let mut scanning_ids = use_signal(Vec::<String>::new);
-    let mut graph_repo_id = use_signal(|| Option::<String>::None);
-
-    let mut repos = use_resource(move || {
-        let p = page();
-        async move {
-            crate::infrastructure::repositories::fetch_repositories(p)
-                .await
-                .ok()
-        }
-    });
-
-    rsx! {
-        PageHeader {
-            title: "Repositories",
-            description: "Legacy git repositories. Onboard new targets from Targets / Onboard.",
-        }
-
-        // ── Delete confirmation dialog ──
-        if let Some((del_id, del_name)) = confirm_delete() {
-            div { class: "modal-overlay",
-                div { class: "modal-dialog",
-                    h3 { "Delete Repository" }
-                    p {
-                        "Are you sure you want to delete "
-                        strong { "{del_name}" }
-                        "?"
-                    }
-                    p { class: "modal-warning",
-                        "This will permanently remove all associated findings, SBOM entries, scan runs, graph data, embeddings, and CVE alerts."
-                    }
-                    div { class: "modal-actions",
-                        button {
-                            class: "btn btn-secondary",
-                            onclick: move |_| confirm_delete.set(None),
-                            "Cancel"
-                        }
-                        button {
-                            class: "btn btn-danger",
-                            onclick: move |_| {
-                                let id = del_id.clone();
-                                let name = del_name.clone();
-                                confirm_delete.set(None);
-                                spawn(async move {
-                                    match crate::infrastructure::repositories::delete_repository(id).await {
-                                        Ok(_) => {
-                                            toasts.push(ToastType::Success, format!("{name} deleted"));
-                                            repos.restart();
-                                        }
-                                        Err(e) => toasts.push(ToastType::Error, e.to_string()),
-                                    }
-                                });
-                            },
-                            "Delete"
-                        }
-                    }
-                }
-            }
-        }
-
-        // ── Edit repository dialog ──
-        if let Some(eid) = edit_repo_id() {
-            div { class: "modal-overlay",
-                div { class: "modal-dialog",
-                    h3 { "Edit Repository" }
-                    div { class: "form-group",
-                        label { "Name" }
-                        input {
-                            r#type: "text",
-                            value: "{edit_name}",
-                            oninput: move |e| edit_name.set(e.value()),
-                        }
-                    }
-                    div { class: "form-group",
-                        label { "Default Branch" }
-                        input {
-                            r#type: "text",
-                            value: "{edit_branch}",
-                            oninput: move |e| edit_branch.set(e.value()),
-                        }
-                    }
-                    h4 { style: "margin-top: 16px; margin-bottom: 8px; font-size: 14px; color: var(--text-secondary);", "Issue Tracker" }
-                    div { class: "form-group",
-                        label { "Tracker Type" }
-                        select {
-                            value: "{edit_tracker_type}",
-                            onchange: move |e| edit_tracker_type.set(e.value()),
-                            option { value: "", "None" }
-                            option { value: "github", "GitHub" }
-                            option { value: "gitlab", "GitLab" }
-                            option { value: "gitea", "Gitea" }
-                            option { value: "jira", "Jira" }
-                        }
-                    }
-                    div { class: "form-group",
-                        label { "Owner / Namespace" }
-                        input {
-                            r#type: "text",
-                            placeholder: "org-name",
-                            value: "{edit_tracker_owner}",
-                            oninput: move |e| edit_tracker_owner.set(e.value()),
-                        }
-                    }
-                    div { class: "form-group",
-                        label { "Repository / Project" }
-                        input {
-                            r#type: "text",
-                            placeholder: "repo-name",
-                            value: "{edit_tracker_repo}",
-                            oninput: move |e| edit_tracker_repo.set(e.value()),
-                        }
-                    }
-                    div { class: "form-group",
-                        label { "Tracker Token (leave empty to keep existing)" }
-                        input {
-                            r#type: "password",
-                            placeholder: "Enter new token to change",
-                            value: "{edit_tracker_token}",
-                            oninput: move |e| edit_tracker_token.set(e.value()),
-                        }
-                    }
-                    // Webhook configuration section
-                    if let Some(secret) = edit_webhook_secret() {
-                        h4 {
-                            style: "margin-top: 16px; margin-bottom: 8px; font-size: 14px; color: var(--text-secondary);",
-                            "Webhook Configuration"
-                        }
-                        p {
-                            style: "font-size: 12px; color: var(--text-secondary); margin-bottom: 8px;",
-                            "Add this webhook in your repository settings to enable push-triggered scans and PR reviews."
-                        }
-                        div { class: "form-group",
-                            label { "Webhook URL" }
-                            {
-                                #[cfg(feature = "web")]
-                                let origin = web_sys::window()
-                                    .and_then(|w: web_sys::Window| w.location().origin().ok())
-                                    .unwrap_or_default();
-                                #[cfg(not(feature = "web"))]
-                                let origin = String::new();
-                                let webhook_url = format!("{origin}/webhook/{}/{eid}", edit_webhook_tracker());
-                                rsx! {
-                                    div { class: "copyable",
-                                        input {
-                                            r#type: "text",
-                                            readonly: true,
-                                            style: "font-family: monospace; font-size: 12px; flex: 1;",
-                                            value: "{webhook_url}",
-                                        }
-                                        crate::components::copy_button::CopyButton { value: webhook_url.clone() }
-                                    }
-                                }
-                            }
-                        }
-                        div { class: "form-group",
-                            label { "Webhook Secret" }
-                            div { class: "copyable",
-                                input {
-                                    r#type: "text",
-                                    readonly: true,
-                                    style: "font-family: monospace; font-size: 12px; flex: 1;",
-                                    value: "{secret}",
-                                }
-                                crate::components::copy_button::CopyButton { value: secret.clone() }
-                            }
-                        }
-                    }
-                    div { class: "modal-actions",
-                        button {
-                            class: "btn btn-secondary",
-                            onclick: move |_| edit_repo_id.set(None),
-                            "Cancel"
-                        }
-                        button {
-                            class: "btn btn-primary",
-                            disabled: edit_saving(),
-                            onclick: move |_| {
-                                let id = eid.clone();
-                                let nm = { let v = edit_name(); if v.is_empty() { None } else { Some(v) } };
-                                let br = { let v = edit_branch(); if v.is_empty() { None } else { Some(v) } };
-                                let tt = { let v = edit_tracker_type(); if v.is_empty() { None } else { Some(v) } };
-                                let t_owner = { let v = edit_tracker_owner(); if v.is_empty() { None } else { Some(v) } };
-                                let t_repo = { let v = edit_tracker_repo(); if v.is_empty() { None } else { Some(v) } };
-                                let t_tok = { let v = edit_tracker_token(); if v.is_empty() { None } else { Some(v) } };
-                                edit_saving.set(true);
-                                spawn(async move {
-                                    match crate::infrastructure::repositories::update_repository(
-                                        id, nm, br, None, None, tt, t_owner, t_repo, t_tok, None,
-                                    ).await {
-                                        Ok(_) => {
-                                            toasts.push(ToastType::Success, "Repository updated");
-                                            repos.restart();
-                                        }
-                                        Err(e) => toasts.push(ToastType::Error, e.to_string()),
-                                    }
-                                    edit_saving.set(false);
-                                    edit_repo_id.set(None);
-                                });
-                            },
-                            if edit_saving() { "Saving..." } else { "Save" }
-                        }
-                    }
-                }
-            }
-        }
-
-        match &*repos.read() {
-            Some(Some(resp)) => {
-                let total_pages = resp.total.unwrap_or(0).div_ceil(20).max(1);
-                rsx! {
-                    div { class: "card",
-                        div { class: "table-wrapper",
-                            table {
-                                thead {
-                                    tr {
-                                        th { "Name" }
-                                        th { "Git URL" }
-                                        th { "Branch" }
-                                        th { "Findings" }
-                                        th { "Last Scanned" }
-                                        th { "Actions" }
-                                    }
-                                }
-                                tbody {
-                                    for repo in &resp.data {
-                                        {
-                                            let repo_id = repo.id.as_ref().map(|id| id.to_hex()).unwrap_or_default();
-                                            let repo_id_scan = repo_id.clone();
-                                            let repo_id_del = repo_id.clone();
-                                            let repo_id_edit = repo_id.clone();
-                                            let repo_name_del = repo.name.clone();
-                                            let edit_repo_data = repo.clone();
-                                            let is_scanning = scanning_ids().contains(&repo_id);
-                                            rsx! {
-                                                tr {
-                                                    td { "{repo.name}" }
-                                                    td {
-                                                        style: "font-size: 12px; font-family: monospace;",
-                                                        "{repo.git_url}"
-                                                    }
-                                                    td { "{repo.default_branch}" }
-                                                    td { "{repo.findings_count}" }
-                                                    td {
-                                                        {
-                                                            let now = chrono::Utc::now();
-                                                            let diff = now.signed_duration_since(repo.updated_at);
-                                                            let label = if diff.num_minutes() < 1 {
-                                                                "just now".to_string()
-                                                            } else if diff.num_hours() < 1 {
-                                                                format!("{}m ago", diff.num_minutes())
-                                                            } else if diff.num_days() < 1 {
-                                                                format!("{}h ago", diff.num_hours())
-                                                            } else if diff.num_days() < 30 {
-                                                                format!("{}d ago", diff.num_days())
-                                                            } else {
-                                                                repo.updated_at.format("%Y-%m-%d").to_string()
-                                                            };
-                                                            rsx! { span { style: "font-size: 12px;", "{label}" } }
-                                                        }
-                                                    }
-                                                    td { style: "display: flex; gap: 4px;",
-                                                        button {
-                                                            class: if graph_repo_id().as_deref() == Some(repo_id.as_str()) { "btn btn-ghost btn-active" } else { "btn btn-ghost" },
-                                                            title: "View graph",
-                                                            onclick: {
-                                                                let rid = repo_id.clone();
-                                                                move |_| {
-                                                                    if graph_repo_id().as_deref() == Some(rid.as_str()) {
-                                                                        graph_repo_id.set(None);
-                                                                    } else {
-                                                                        graph_repo_id.set(Some(rid.clone()));
-                                                                    }
-                                                                }
-                                                            },
-                                                            Icon { icon: BsDiagram3, width: 16, height: 16 }
-                                                        }
-                                                        button {
-                                                            class: "btn btn-ghost",
-                                                            title: "Edit repository",
-                                                            onclick: move |_| {
-                                                                edit_name.set(edit_repo_data.name.clone());
-                                                                edit_branch.set(edit_repo_data.default_branch.clone());
-                                                                edit_tracker_type.set(
-                                                                    edit_repo_data.tracker_type.as_ref().map(|t| t.to_string()).unwrap_or_default()
-                                                                );
-                                                                edit_tracker_owner.set(edit_repo_data.tracker_owner.clone().unwrap_or_default());
-                                                                edit_tracker_repo.set(edit_repo_data.tracker_repo.clone().unwrap_or_default());
-                                                                edit_tracker_token.set(String::new());
-                                                                edit_webhook_secret.set(None);
-                                                                edit_webhook_tracker.set(String::new());
-                                                                edit_repo_id.set(Some(repo_id_edit.clone()));
-                                                                // Fetch webhook config in background
-                                                                let rid = repo_id_edit.clone();
-                                                                spawn(async move {
-                                                                    if let Ok(cfg) = crate::infrastructure::repositories::fetch_webhook_config(rid).await {
-                                                                        edit_webhook_secret.set(cfg.webhook_secret);
-                                                                        edit_webhook_tracker.set(cfg.tracker_type);
-                                                                    }
-                                                                });
-                                                            },
-                                                            Icon { icon: BsPencil, width: 16, height: 16 }
-                                                        }
-                                                        button {
-                                                            class: if is_scanning { "btn btn-ghost btn-scanning" } else { "btn btn-ghost" },
-                                                            title: "Trigger scan",
-                                                            disabled: is_scanning,
-                                                            onclick: move |_| {
-                                                                let id = repo_id_scan.clone();
-                                                                // Add to scanning set
-                                                                let mut ids = scanning_ids();
-                                                                ids.push(id.clone());
-                                                                scanning_ids.set(ids);
-                                                                spawn(async move {
-                                                                    match crate::infrastructure::repositories::trigger_repo_scan(id.clone()).await {
-                                                                        Ok(_) => {
-                                                                            toasts.push(ToastType::Success, "Scan triggered");
-                                                                            // Poll until scan completes
-                                                                            loop {
-                                                                                async_sleep_5s().await;
-                                                                                match crate::infrastructure::repositories::check_repo_scanning(id.clone()).await {
-                                                                                    Ok(false) => break,
-                                                                                    Ok(true) => continue,
-                                                                                    Err(_) => break,
-                                                                                }
-                                                                            }
-                                                                            toasts.push(ToastType::Success, "Scan complete");
-                                                                            repos.restart();
-                                                                        }
-                                                                        Err(e) => toasts.push(ToastType::Error, e.to_string()),
-                                                                    }
-                                                                    // Remove from scanning set
-                                                                    let mut ids = scanning_ids();
-                                                                    ids.retain(|i| i != &id);
-                                                                    scanning_ids.set(ids);
-                                                                });
-                                                            },
-                                                            if is_scanning {
-                                                                span { class: "spinner" }
-                                                            } else {
-                                                                Icon { icon: BsPlayCircle, width: 16, height: 16 }
-                                                            }
-                                                        }
-                                                        button {
-                                                            class: "btn btn-ghost btn-ghost-danger",
-                                                            title: "Delete repository",
-                                                            onclick: move |_| {
-                                                                confirm_delete.set(Some((repo_id_del.clone(), repo_name_del.clone())));
-                                                            },
-                                                            Icon { icon: BsTrash, width: 16, height: 16 }
-                                                        }
-                                                    }
-                                                }
-                                            }
-                                        }
-                                    }
-                                }
-                            }
-                        }
-                        Pagination {
-                            current_page: page(),
-                            total_pages: total_pages,
-                            on_page_change: move |p| page.set(p),
-                        }
-                    }
-
-                    // Inline graph explorer
-                    if let Some(rid) = graph_repo_id() {
-                        div { class: "card", style: "margin-top: 16px;",
-                            div { class: "card-header", style: "display: flex; justify-content: space-between; align-items: center;",
-                                span { "Code Graph" }
-                                button {
-                                    class: "btn btn-sm btn-ghost",
-                                    title: "Close graph",
-                                    onclick: move |_| { graph_repo_id.set(None); },
-                                    Icon { icon: BsX, width: 18, height: 18 }
-                                }
-                            }
-                            GraphExplorerInline { repo_id: rid }
-                        }
-                    }
-                }
-            },
-            Some(None) => rsx! {
-                div { class: "card", p { "Failed to load repositories." } }
-            },
-            None => rsx! {
-                div { class: "loading", "Loading repositories..." }
-            },
-        }
-    }
-}

compliance-dashboard/src/pages/targets.rs

@@ -12,9 +12,35 @@ use dioxus_free_icons::Icon;
 use crate::components::page_header::PageHeader;
 use crate::components::toast::{ToastType, Toasts};
 use crate::infrastructure::onboarding::{
-    delete_target, fetch_applicable_scans, fetch_targets, trigger_target_scan,
+    delete_target, fetch_applicable_scans, fetch_targets, trigger_target_scan, update_target,
+    validate_artifact_ref, validate_target_name, ArtifactInputDto,
 };
 
+/// The nine target families (value, label) for the edit form's type selector.
+const TARGET_TYPES: &[(&str, &str)] = &[
+    ("web_app", "Web Application"),
+    ("backend_service", "Backend / API"),
+    ("desktop_app", "Desktop App"),
+    ("android_app", "Android App"),
+    ("ios_app", "iOS App"),
+    ("firmware_bare_metal", "Firmware — bare metal"),
+    ("firmware_rtos", "Firmware — RTOS"),
+    ("embedded_linux_yocto", "Embedded Linux / Yocto"),
+    ("plc_sps", "PLC / SPS"),
+];
+
+/// The artifact kinds (value, label) for the edit form.
+const ARTIFACT_KINDS: &[(&str, &str)] = &[
+    ("git_repo", "Git repository"),
+    ("source_archive", "Source archive (zip)"),
+    ("firmware_image", "Firmware image"),
+    ("mobile_package", "Mobile package (APK/IPA)"),
+    ("container_image", "Container image"),
+    ("live_url", "Live URL"),
+    ("plc_project", "PLC project"),
+    ("plaintext_description", "Description (text)"),
+];
+
 /// Prettify a snake_case target-type value into a human label.
 fn pretty_type(v: &str) -> String {
     match v {
@@ -106,6 +132,17 @@ pub fn TargetsPage() -> Element {
     let mut expanded_ids = use_signal(Vec::<String>::new);
     let mut confirm_delete = use_signal(|| Option::<(String, String)>::None);
 
+    // Edit-target modal state.
+    let mut edit_id = use_signal(|| Option::<String>::None);
+    let mut edit_name = use_signal(String::new);
+    let mut edit_type = use_signal(String::new);
+    let mut edit_arts = use_signal(Vec::<ArtifactInputDto>::new);
+    let mut edit_saving = use_signal(|| false);
+    // In-modal "add artifact" mini-form.
+    let mut e_kind = use_signal(|| "git_repo".to_string());
+    let mut e_source = use_signal(String::new);
+    let mut e_branch = use_signal(|| "main".to_string());
+
     let mut targets = use_resource(move || async move { fetch_targets().await.ok() });
 
     rsx! {
@@ -163,6 +200,145 @@ pub fn TargetsPage() -> Element {
             }
         }
 
+        // ── Edit target ──
+        if let Some(eid) = edit_id() {
+            {
+            let name_err = validate_target_name(&edit_name());
+            let e_source_err = if e_source().is_empty() {
+                None
+            } else {
+                validate_artifact_ref(&e_kind(), &e_source())
+            };
+            rsx! {
+                div { class: "modal-overlay",
+                    div { class: "modal-dialog",
+                        h3 { "Edit target" }
+                        div { class: "form-group",
+                            label { "Name" }
+                            input {
+                                r#type: "text",
+                                value: "{edit_name}",
+                                oninput: move |e| edit_name.set(e.value()),
+                            }
+                            if !edit_name().is_empty() {
+                                if let Some(err) = name_err.clone() {
+                                    div { style: "color: var(--danger, #d33); font-size: 0.85em;", "{err}" }
+                                }
+                            }
+                        }
+                        div { class: "form-group",
+                            label { "Type" }
+                            select {
+                                value: "{edit_type}",
+                                oninput: move |e| edit_type.set(e.value()),
+                                for (v, l) in TARGET_TYPES.iter().copied() {
+                                    option { value: "{v}", selected: edit_type() == v, "{l}" }
+                                }
+                            }
+                        }
+                        label { style: "font-weight: 600;", "Artifacts" }
+                        for (i, a) in edit_arts().iter().enumerate() {
+                            div { style: "display: flex; justify-content: space-between; align-items: center; padding: 4px 0;",
+                                span { style: "font-size: 0.9em;",
+                                    span { style: "opacity: 0.7;", "{a.kind}: " }
+                                    span { style: "font-family: monospace;", "{a.source_ref}" }
+                                }
+                                button {
+                                    class: "btn btn-ghost btn-ghost-danger btn-sm",
+                                    onclick: move |_| { edit_arts.write().remove(i); },
+                                    "Remove"
+                                }
+                            }
+                        }
+                        div { style: "display: flex; gap: 8px; align-items: flex-end; margin-top: 8px;",
+                            div { class: "form-group", style: "margin: 0;",
+                                label { "Kind" }
+                                select {
+                                    value: "{e_kind}",
+                                    oninput: move |e| e_kind.set(e.value()),
+                                    for (v, l) in ARTIFACT_KINDS.iter().copied() {
+                                        option { value: "{v}", selected: e_kind() == v, "{l}" }
+                                    }
+                                }
+                            }
+                            div { class: "form-group", style: "margin: 0; flex: 1;",
+                                label { "Reference" }
+                                input {
+                                    r#type: "text",
+                                    value: "{e_source}",
+                                    oninput: move |e| e_source.set(e.value()),
+                                }
+                            }
+                            if e_kind() == "git_repo" {
+                                div { class: "form-group", style: "margin: 0;",
+                                    label { "Branch" }
+                                    input {
+                                        r#type: "text",
+                                        value: "{e_branch}",
+                                        oninput: move |e| e_branch.set(e.value()),
+                                    }
+                                }
+                            }
+                            button {
+                                class: "btn btn-secondary",
+                                disabled: e_source().trim().is_empty() || e_source_err.is_some(),
+                                onclick: move |_| {
+                                    let kind = e_kind();
+                                    if !e_source().trim().is_empty()
+                                        && validate_artifact_ref(&kind, &e_source()).is_none()
+                                    {
+                                        let branch = if kind == "git_repo" { Some(e_branch()) } else { None };
+                                        edit_arts.write().push(ArtifactInputDto {
+                                            kind,
+                                            source_ref: e_source(),
+                                            branch,
+                                            plc_format: None,
+                                        });
+                                        e_source.set(String::new());
+                                    }
+                                },
+                                "+ Add"
+                            }
+                        }
+                        if let Some(err) = e_source_err.clone() {
+                            div { style: "color: var(--danger, #d33); font-size: 0.85em;", "{err}" }
+                        }
+                        div { class: "modal-actions",
+                            button {
+                                class: "btn btn-secondary",
+                                onclick: move |_| edit_id.set(None),
+                                "Cancel"
+                            }
+                            button {
+                                class: "btn btn-primary",
+                                disabled: edit_saving() || name_err.is_some(),
+                                onclick: move |_| {
+                                    let id = eid.clone();
+                                    let nm = edit_name();
+                                    let tt = edit_type();
+                                    let arts = edit_arts();
+                                    edit_saving.set(true);
+                                    spawn(async move {
+                                        match update_target(id, Some(nm), Some(tt), Some(arts)).await {
+                                            Ok(_) => {
+                                                toasts.push(ToastType::Success, "Target updated");
+                                                targets.restart();
+                                                edit_id.set(None);
+                                            }
+                                            Err(e) => toasts.push(ToastType::Error, e.to_string()),
+                                        }
+                                        edit_saving.set(false);
+                                    });
+                                },
+                                if edit_saving() { "Saving..." } else { "Save" }
+                            }
+                        }
+                    }
+                }
+            }
+            }
+        }
+
         {
         let targets_snapshot = targets.read().clone();
         match &targets_snapshot {
@@ -223,8 +399,12 @@ pub fn TargetsPage() -> Element {
                                                 let id_scan = id.clone();
                                                 let id_exp = id.clone();
                                                 let id_del = id.clone();
+                                                let id_edit = id.clone();
                                                 let name_del = name.clone();
+                                                let name_edit = name.clone();
+                                                let ttype_raw = str_at(&t, "target_type").to_string();
                                                 let artifacts_detail = artifacts.clone();
+                                                let artifacts_edit = artifacts.clone();
                                                 rsx! {
                                                     tr {
                                                         td { strong { "{name}" } }
@@ -253,6 +433,31 @@ pub fn TargetsPage() -> Element {
                                                                 },
                                                                 Icon { icon: BsInfoCircle, width: 16, height: 16 }
                                                             }
+                                                            button {
+                                                                class: "btn btn-ghost",
+                                                                title: "Edit target",
+                                                                onclick: move |_| {
+                                                                    edit_name.set(name_edit.clone());
+                                                                    edit_type.set(ttype_raw.clone());
+                                                                    let arts: Vec<ArtifactInputDto> = artifacts_edit
+                                                                        .iter()
+                                                                        .map(|a| ArtifactInputDto {
+                                                                            kind: str_at(a, "kind").to_string(),
+                                                                            source_ref: str_at(a, "source_ref").to_string(),
+                                                                            branch: a
+                                                                                .get("git")
+                                                                                .and_then(|g| g.get("default_branch"))
+                                                                                .and_then(|b| b.as_str())
+                                                                                .map(String::from),
+                                                                            plc_format: None,
+                                                                        })
+                                                                        .collect();
+                                                                    edit_arts.set(arts);
+                                                                    e_source.set(String::new());
+                                                                    edit_id.set(Some(id_edit.clone()));
+                                                                },
+                                                                Icon { icon: BsPencil, width: 16, height: 16 }
+                                                            }
                                                             button {
                                                                 class: if is_scanning { "btn btn-ghost btn-scanning" } else { "btn btn-ghost" },
                                                                 title: "Run scan",

docker/agent-entrypoint.sh

@@ -0,0 +1,19 @@
+#!/usr/bin/env bash
+# Seed the nix store on first start, then run the agent.
+#
+# The firmware-SBOM pipeline drives a real `nix` build (tramiton NixBackend).
+# The image ships the store as a bootstrap tarball rather than baking /nix, so a
+# persistent /nix volume (mounted empty on first deploy) gets populated once and
+# then survives redeploys. Seeding is best-effort: if it fails, the agent still
+# starts and firmware SBOMs fall back to analysis-only.
+if [ ! -e /nix/store ]; then
+  echo "agent-entrypoint: seeding /nix store from image bootstrap..."
+  mkdir -p /nix
+  if tar -C / -xzf /opt/nix-bootstrap.tar.gz; then
+    echo "agent-entrypoint: /nix store seeded."
+  else
+    echo "agent-entrypoint: WARN nix seed failed; firmware SBOM will use analysis-only fallback."
+  fi
+fi
+
+exec compliance-agent "$@"

docs/.vitepress/config.mts

@@ -20,6 +20,7 @@ export default withMermaid(defineConfig({
           { text: 'Getting Started', link: '/guide/getting-started' },
           { text: 'Adding Repositories', link: '/guide/repositories' },
           { text: 'Running Scans', link: '/guide/scanning' },
+          { text: 'PLC / SPS (CODESYS)', link: '/guide/plc' },
           { text: 'Understanding Findings', link: '/guide/findings' },
           { text: 'SBOM & Licenses', link: '/guide/sbom' },
           { text: 'Issues & Tracking', link: '/guide/issues' },
@@ -43,6 +44,7 @@ export default withMermaid(defineConfig({
         items: [
           { text: 'Glossary', link: '/reference/glossary' },
           { text: 'Tools & Scanners', link: '/reference/tools' },
+          { text: 'PLC Runtime Landscape', link: '/reference/plc-runtimes' },
         ],
       },
     ],

docs/guide/plc.md

@@ -0,0 +1,97 @@
+# PLC / SPS Projects (CODESYS)
+
+Certifai analyzes industrial control logic (IEC 61131-3) for PLC/SPS targets such
+as CODESYS projects. A single PLC/SPS target is treated as a **composite device**:
+the control application *and* the device it runs on.
+
+| What you provide | What Certifai does |
+| --- | --- |
+| PLC project (PLCopen XML / ST, or a `.projectarchive`) | **Control-logic SAST** — semantic security rules over ST **and** graphical FBD/LD |
+| A `.projectarchive` | **Control-app SBOM** — the referenced CODESYS libraries + the runtime version, matched against known CVEs |
+| A device firmware image | Firmware SBOM / CVE (opt-in) |
+| A reachable endpoint (WebVisu, OPC UA) | DAST / pentest (opt-in) |
+
+## Two ways to deliver the project
+
+You can either **upload** the project when onboarding, or point Certifai at a
+**git repository** (recommended — every scan is just a `git pull`, no re-upload).
+
+### Option A — Upload
+
+On the onboarding wizard, choose target type **PLC / SPS**, then attach a **PLC
+project** artifact and pick its format:
+
+- **PLCopen XML** (`.xml`) — export from CODESYS via *Project → Export PLCopenXML*.
+- **Structured Text** (`.st`) — a raw ST file.
+- **Project archive** (`.projectarchive`) — *File → Project Archive → Save/Send
+  Archive…* with **"Referenced libraries"** ticked. This is the only form that
+  also yields the **library + runtime SBOM**.
+
+### Option B — Git repository (recommended)
+
+Attach a **Git repository** artifact to the PLC/SPS target. Certifai clones it and
+runs the control-logic scan over the exported source in the repo.
+
+## Best-case git repository layout
+
+Because the binary `.project` does not diff or merge in git, commit **textual
+exports** for review-friendly SAST, and include the **`.projectarchive`** so the
+library/runtime SBOM is available too:
+
+```text
+my-plc-project/
+├── src/
+│   ├── PLC_PRG.xml          # PLCopen XML export (ST or FBD/LD) — one per POU
+│   ├── PumpController.xml
+│   ├── SafetyInterlock.xml
+│   └── GVL.xml              # global variable lists, also as PLCopen XML
+├── PumpStation.projectarchive   # optional but recommended → library + runtime SBOM
+└── README.md
+```
+
+**Guidelines**
+
+- **Export to PLCopen XML** (`Project → Export PLCopenXML`), one file per POU, and
+  commit those. ST, **and graphical FBD/LD**, are both analyzed.
+- Alternatively commit raw `.st` / `.exp` / `.scl` files — also analyzed.
+- **Do not** commit only the binary `.project` — it cannot be parsed (and does not
+  diff). If you want the library SBOM, commit the **`.projectarchive`** as well.
+- CODESYS's built-in Git integration, which stores an exported representation,
+  works too — as long as the committed form is PLCopen XML / textual.
+
+::: tip What unlocks what
+- **Control-logic SAST** needs textual source in the repo (PLCopen XML or `.st`).
+- **Library + runtime SBOM** needs a **`.projectarchive`** — PLCopen XML exports do
+  **not** carry the referenced libraries.
+:::
+
+## What the scanner finds
+
+The control-logic rules are CWE-mapped and include: hardcoded credentials
+(CWE-798), default/weak passwords (CWE-1393), safety interlock / watchdog bypass
+(CWE-1384), unchecked array indexing (CWE-129), division-by-zero (CWE-369,
+guard-aware), cleartext/insecure communication (CWE-319), insecure protocol ports
+(CWE-319, e.g. Modbus 502, FTP 21, Telnet 23), and unstructured jumps (CWE-691).
+
+The **SBOM** view lists the CODESYS libraries (`pkg:codesys/<name>@<version>`) and
+the runtime; matching runtime components (e.g. the `Cmp*` / `3SLicense` libraries)
+surface real CODESYS advisories as CVE alerts.
+
+## Dynamic testing — ICS protocol probe
+
+Beyond the static analysis, Certifai can **probe the running device** over
+industrial protocols. Attach a **Live URL** artifact (the device host / WebVisu
+URL) to the PLC/SPS target and enable the **ICS Probe** scan.
+
+The probe is **read-only** — it never writes to the live process. It currently
+speaks **Modbus/TCP** (port 502): it confirms whether the device answers
+unauthenticated Modbus requests and reads its device identity (vendor / product /
+revision). Because Modbus/TCP has no authentication or encryption in the protocol,
+a reachable endpoint that answers is reported as an exposed control interface
+(CWE-306). OPC UA and EtherNet/IP probes are planned.
+
+::: warning
+The ICS probe connects to the live device. It is **opt-in** (off by default) and
+should only be run against targets you are authorized to test. It performs reads
+only, never writes.
+:::

docs/reference/plc-runtimes.md

@@ -0,0 +1,97 @@
+# PLC Runtime Landscape & Support
+
+A soft PLC is a **SoC + Linux + a software runtime + an IEC 61131-3 control app**
+(see [PLC / SPS Projects](/guide/plc)).
+The **runtime** is what defines the device — it provides the IEC engine, the
+Modbus / OPC UA / EtherNet/IP servers, and the WebVisu. This page tracks the
+runtime ecosystems Certifai may encounter.
+
+We do **not** aim to support every runtime up front. Certifai supports the
+**CODESYS family** today; everything else is a **watch-list** — when a customer
+shows up using one, we add the parser/support for it then. The dynamic OT probe
+(Modbus / OPC UA / EtherNet/IP) is **vendor-agnostic** and works regardless of
+the runtime.
+
+## Support status
+
+| Status | Meaning |
+| --- | --- |
+| ✅ **Supported** | Static analysis works today (control-logic SAST + library/runtime SBOM + CVE). |
+| 🟡 **Covered via CODESYS** | A rebranded CODESYS runtime — our CODESYS parsing applies (may need minor per-vendor tweaks). |
+| 🔭 **Watch-list** | Own project format — we add a format parser when a customer needs it. The dynamic OT probe already applies. |
+| 🧪 **Test-bench** | A free runtime we use to *reconstruct and dynamically test* a device (see epic: provision-and-test). |
+
+## 1. CODESYS and rebranded CODESYS (the largest slice)
+
+Much of the market licenses the CODESYS runtime and rebrands the IDE. If a
+customer "doesn't use CODESYS", they often do — under another name.
+
+| Product / vendor | Based on | Status |
+| --- | --- | --- |
+| **CODESYS** (3S-Smart Software Solutions) | CODESYS | ✅ Supported |
+| Schneider **EcoStruxure Machine Expert** (ex-SoMachine) | CODESYS | 🟡 Covered via CODESYS |
+| **WAGO** e!COCKPIT / PFC controllers | CODESYS | 🟡 Covered via CODESYS |
+| **ABB** AC500 / Automation Builder | CODESYS | 🟡 Covered via CODESYS |
+| **Bosch Rexroth** ctrlX / IndraLogic | CODESYS | 🟡 Covered via CODESYS |
+| **Eaton** XSoft-CODESYS, **KEBA** KeStudio, Berghof, Kontron, Festo (CPX-E), IFM, Turck, … | CODESYS | 🟡 Covered via CODESYS |
+
+## 2. Other embeddable IEC 61131-3 runtime toolkits
+
+Same model as CODESYS (an OEM licenses a runtime + IDE and bakes it into a
+device), but with **different project formats and libraries**.
+
+| Toolkit | Vendor | Status |
+| --- | --- | --- |
+| **ProConOS / MULTIPROG** | Phoenix Contact / KW-Software | 🔭 Watch-list |
+| **ISaGRAF** (also does IEC 61499) | Rockwell | 🔭 Watch-list |
+| **straton** | COPA-DATA | 🔭 Watch-list |
+| **logi.CAD** | logi.cals | 🔭 Watch-list |
+
+## 3. Fully proprietary ecosystems (own runtime + IDE + protocols)
+
+Static analysis here needs a **per-vendor project parser**; the **dynamic OT
+probe still works** (they speak Modbus / OPC UA / EtherNet/IP, plus vendor
+protocols like S7comm / CIP).
+
+| Ecosystem | Vendor | Notes | Status |
+| --- | --- | --- | --- |
+| **TIA Portal / STEP 7** (S7-1200/1500), S7-1500 **Software Controller**, **Virtual PLC** | Siemens | Largest install base; the soft/virtual variants are Linux/container | 🔭 Watch-list |
+| **Studio 5000** (ControlLogix / CompactLogix) | Rockwell / Allen-Bradley | Strong in North America | 🔭 Watch-list |
+| **TwinCAT 3** | Beckhoff | Genuine PC-based control on Windows / TwinCAT-BSD; IEC 61131-3 **+ C++ + Simulink** | 🔭 Watch-list |
+| **Automation Studio** | B&R (ABB) | Own Automation Runtime | 🔭 Watch-list |
+| **GX Works** (MELSEC) | Mitsubishi | | 🔭 Watch-list |
+| **Sysmac Studio** (NX / NJ) | Omron | | 🔭 Watch-list |
+| **Proficy Machine Edition** (PACSystems) | Emerson / GE | | 🔭 Watch-list |
+
+## 4. Linux-native / containerized soft-PLC (the direction of travel)
+
+| Product | Vendor | Notes | Status |
+| --- | --- | --- | --- |
+| **PLCnext** | Phoenix Contact | Open, Linux-based; native runtime is eCLR (not CODESYS), but can also run CODESYS as an app | 🔭 Watch-list |
+| **ctrlX** | Bosch Rexroth | Ubuntu-core, app-store model (CODESYS runtime inside) | 🟡 Covered via CODESYS |
+| **Virtual PLC** / **CODESYS Virtual Control** | Siemens / CODESYS | Containerized PLCs (Docker / K8s) | 🟡 / 🔭 |
+
+## 5. Open-source runtimes (free — our test-bench substrates)
+
+Used to **reconstruct and dynamically test** a customer device without touching
+their network (provision-and-test).
+
+| Runtime | Standard | Notes | Status |
+| --- | --- | --- | --- |
+| **OpenPLC** | IEC 61131-3 | Modbus-centric, education/small automation; uses MatIEC | 🧪 Test-bench (current) |
+| **Beremiz + MatIEC** | IEC 61131-3 | Fuller open-source IDE; compiles ST/IL → C. Natural fidelity step-up from OpenPLC | 🧪 Test-bench (candidate) |
+| **Eclipse 4diac (FORTE)** | IEC **61499** | Distributed, event-driven — a *different paradigm* from 61131-3's scan cycle | 🔭 Watch-list |
+| **ProView** | — | Open-source process control + SCADA | 🔭 Watch-list |
+
+## How we add support for a new runtime
+
+- **Static (SAST / SBOM):** needs a parser for that runtime's **project format**
+  (and its library/package convention). This is the per-vendor work.
+- **Dynamic (ICS probe / DAST):** already **vendor-agnostic** — it targets the
+  device's OT ports and WebVisu, not the runtime's file format. So a brand-new
+  ecosystem still gets dynamic coverage on day one.
+
+::: tip Rule of thumb
+Confirm whether a "non-CODESYS" controller is actually a **rebranded CODESYS**
+runtime (Section 1) before assuming new work — most of the long tail is.
+:::

examples/plc-demo/conveyor.xml

@@ -0,0 +1,36 @@
+<?xml version="1.0" encoding="utf-8"?>
+<!-- Demo PLCopen project — conveyor sorter. Deliberately vulnerable. -->
+<project xmlns="http://www.plcopen.org/xml/tc6_0201">
+  <types>
+    <pous>
+      <pou name="ConveyorCtrl" pouType="program">
+        <interface>
+          <localVars>
+            <variable name="AdminPwd">
+              <type><string/></type>
+              <initialValue><simpleValue value="password"/></initialValue>
+            </variable>
+            <variable name="Belt">
+              <type>
+                <array>
+                  <dimension lower="0" upper="3"/>
+                  <baseType><INT/></baseType>
+                </array>
+              </type>
+            </variable>
+          </localVars>
+          <inputVars>
+            <variable name="Slot"><type><INT/></type></variable>
+          </inputVars>
+        </interface>
+        <body>
+          <ST>
+            <xhtml xmlns="http://www.w3.org/1999/xhtml">Belt[Slot] := 1;
+Ftp_Send(HOST := '192.168.1.5', PORT := 21, ENCRYPT := FALSE);
+</xhtml>
+          </ST>
+        </body>
+      </pou>
+    </pous>
+  </types>
+</project>

examples/plc-demo/pump_fbd.xml

@@ -0,0 +1,56 @@
+<?xml version="1.0" encoding="utf-8"?>
+<!-- Function Block Diagram (FBD) POU in PLCopen TC6 XML form. Demonstrates that
+     the scanner analyses graphical logic, not just Structured Text: the same
+     defects (cleartext Modbus master on 502, a hardcoded HMI password, a safety
+     enable driven FALSE) are here wired as blocks and in/out variables. -->
+<project xmlns="http://www.plcopen.org/xml/tc6_0201">
+  <types>
+    <pous>
+      <pou name="PumpFbdCtrl" pouType="functionBlock">
+        <interface>
+          <inputVars>
+            <variable name="HmiPassword"><type><string/></type></variable>
+            <variable name="Safety_Enable"><type><BOOL/></type></variable>
+            <variable name="ServerIp"><type><string/></type></variable>
+          </inputVars>
+        </interface>
+        <body>
+          <FBD>
+            <!-- Modbus/TCP master: cleartext (AUTH := FALSE) on port 502 -->
+            <inVariable localId="1"><expression>'10.20.0.5'</expression><connectionPointOut/></inVariable>
+            <inVariable localId="2"><expression>502</expression><connectionPointOut/></inVariable>
+            <inVariable localId="3"><expression>FALSE</expression><connectionPointOut/></inVariable>
+            <block localId="10" typeName="Modbus_TCP_Master">
+              <inputVariables>
+                <variable formalParameter="IP">
+                  <connectionPointIn><connection refLocalId="1"/></connectionPointIn>
+                </variable>
+                <variable formalParameter="PORT">
+                  <connectionPointIn><connection refLocalId="2"/></connectionPointIn>
+                </variable>
+                <variable formalParameter="AUTH">
+                  <connectionPointIn><connection refLocalId="3"/></connectionPointIn>
+                </variable>
+              </inputVariables>
+              <outputVariables/>
+            </block>
+
+            <!-- Hardcoded HMI password wired into an output -->
+            <inVariable localId="20"><expression>'admin123'</expression><connectionPointOut/></inVariable>
+            <outVariable localId="21">
+              <expression>HmiPassword</expression>
+              <connectionPointIn><connection refLocalId="20"/></connectionPointIn>
+            </outVariable>
+
+            <!-- Safety enable driven FALSE in logic -->
+            <inVariable localId="30"><expression>FALSE</expression><connectionPointOut/></inVariable>
+            <outVariable localId="31">
+              <expression>Safety_Enable</expression>
+              <connectionPointIn><connection refLocalId="30"/></connectionPointIn>
+            </outVariable>
+          </FBD>
+        </body>
+      </pou>
+    </pous>
+  </types>
+</project>

examples/plc-demo/pump_station.st

@@ -0,0 +1,57 @@
+(*
+ * Demo PLC program — pump-station control (IEC 61131-3 Structured Text).
+ *
+ * Deliberately vulnerable, for the compliance-scanner PLC control-logic demo.
+ * Each issue below is flagged by pipeline::plc::rules.
+ *)
+
+FUNCTION_BLOCK PumpStationCtrl
+VAR_INPUT
+    OperatorCmd   : INT;        (* HMI command index — untrusted *)
+    FlowSetpoint  : REAL;
+END_VAR
+VAR_OUTPUT
+    PumpSpeed     : REAL;
+    Fault         : BOOL;
+END_VAR
+VAR
+    HmiPassword     : STRING := 'admin123';        (* hardcoded + default credential *)
+    ApiKey          : STRING := 'sk_live_9c1f2a';   (* hardcoded secret *)
+    PumpProfiles    : ARRAY[0..7] OF REAL;
+    Safety_Enable   : BOOL := TRUE;
+    Watchdog_Kick   : INT := 1;
+    MeasuredFlow    : REAL;
+    ScaleFactor     : REAL;
+    i               : INT;
+END_VAR
+
+    (* Operator can index the profile table with an unvalidated command. *)
+    PumpSpeed := PumpProfiles[OperatorCmd];
+
+    (* Divisor is a live process value that can read zero on a stopped line. *)
+    ScaleFactor := FlowSetpoint / MeasuredFlow;
+
+    (* Safety interlock disabled straight from application logic. *)
+    IF OperatorCmd = 99 THEN
+        Safety_Enable := FALSE;
+        Watchdog_Kick := 0;
+    END_IF;
+
+    (* Unauthenticated Modbus/TCP link on the cleartext OT port. *)
+    Modbus_TCP_Connect(IP := '10.10.5.20', PORT := 502, AUTH := FALSE, PASSWORD := 'plc');
+
+    (* Unstructured jump around the fault handler. *)
+    IF MeasuredFlow > 1000.0 THEN
+        JMP trip;
+    END_IF;
+
+    (* A correctly guarded division — must NOT be flagged. *)
+    IF ScaleFactor <> 0.0 THEN
+        PumpSpeed := PumpSpeed / ScaleFactor;
+    END_IF;
+
+    RETURN;
+trip:
+    Fault := TRUE;
+    PumpSpeed := 0.0;
+END_FUNCTION_BLOCK

examples/plc-demo/traffic_light.st

@@ -0,0 +1,92 @@
+(*
+ * Pedestrian-crossing traffic-light controller.
+ *
+ * Structure adapted from the classic OpenPLC "traffic light" example
+ * (github.com/thiagoralves/OpenPLC_v3 examples) — a timed state machine
+ * driving vehicle + pedestrian lamps, extended with a SCADA/Modbus link
+ * and a maintenance override so it reads like a real deployed program.
+ *
+ * The control logic itself is sound; the security-relevant defects are the
+ * kind that slip into field code under deadline: a hardcoded SCADA password,
+ * a cleartext Modbus/TCP master, and a maintenance mode that drops the
+ * pedestrian safety permit. Everything else should stay quiet.
+ *)
+PROGRAM TrafficLight
+VAR
+    State        : INT := 0;      (* 0 GreenVeh, 1 Amber, 2 RedVeh/WalkPed, 3 FlashPed *)
+    Tmr          : TON;
+    StateElapsed : TIME;
+    CycleMs      : DINT := 0;
+
+    (* Lamp outputs *)
+    VehGreen     : BOOL := FALSE;
+    VehAmber     : BOOL := FALSE;
+    VehRed       : BOOL := FALSE;
+    PedWalk      : BOOL := FALSE;
+    PedStop      : BOOL := TRUE;
+
+    (* Pedestrian safety permit — must be TRUE before the WALK phase asserts *)
+    PedPermit    : BOOL := TRUE;
+    PedButton    : BOOL := FALSE;
+
+    (* SCADA / remote monitoring *)
+    ScadaUser    : STRING := 'operator';
+    ScadaPassword    : STRING := 'Tr@ffic2019';   (* hardcoded SCADA credential *)
+    ModbusReady  : BOOL := FALSE;
+
+    (* Maintenance override *)
+    MaintMode    : BOOL := FALSE;
+    LampCount    : INT := 5;
+    DutyPct      : INT;
+END_VAR
+
+(* ---- SCADA uplink: publish state to the control room over Modbus/TCP ---- *)
+IF NOT ModbusReady THEN
+    Modbus_TCP_Master(IP := '10.20.0.5', PORT := 502, AUTH := FALSE, USER := ScadaUser, PASS := ScadaPassword);
+    ModbusReady := TRUE;
+END_IF;
+
+(* ---- Duty-cycle for the flashing pedestrian lamp (guarded division) ---- *)
+IF LampCount <> 0 THEN
+    DutyPct := (CycleMs * 100) / LampCount;
+END_IF;
+
+(* ---- Maintenance override: flash amber, hand control to the technician ---- *)
+IF MaintMode THEN
+    VehGreen := FALSE;
+    VehRed   := FALSE;
+    VehAmber := NOT VehAmber;
+    PedPermit := FALSE;      (* drops the pedestrian safety permit in code *)
+    PedWalk  := FALSE;
+    PedStop  := TRUE;
+ELSE
+    (* ---- Normal timed state machine ---- *)
+    Tmr(IN := TRUE, PT := T#5s);
+    StateElapsed := Tmr.ET;
+
+    CASE State OF
+        0:  (* vehicles go, pedestrians stop *)
+            VehGreen := TRUE; VehAmber := FALSE; VehRed := FALSE;
+            PedWalk := FALSE; PedStop := TRUE;
+            IF PedButton AND Tmr.Q THEN
+                State := 1; Tmr(IN := FALSE);
+            END_IF;
+        1:  (* amber transition *)
+            VehGreen := FALSE; VehAmber := TRUE;
+            IF Tmr.Q THEN State := 2; Tmr(IN := FALSE); END_IF;
+        2:  (* vehicles stop, pedestrians walk — only if permitted *)
+            VehAmber := FALSE; VehRed := TRUE;
+            IF PedPermit THEN
+                PedWalk := TRUE; PedStop := FALSE;
+            END_IF;
+            IF Tmr.Q THEN State := 3; Tmr(IN := FALSE); END_IF;
+        3:  (* flashing don't-walk before returning to green *)
+            PedWalk := NOT PedWalk;
+            IF Tmr.Q THEN
+                State := 0; PedButton := FALSE; Tmr(IN := FALSE);
+            END_IF;
+    ELSE
+        State := 0;
+    END_CASE;
+END_IF;
+END_PROGRAM