refactor: rip out the legacy TrackedRepository / repositories path

Onboarded targets are now the sole persisted entity. The legacy
`TrackedRepository` model, the `repositories` collection, the `/repositories`
API, the Repositories dashboard page, the one-shot migration, and the
`UNIFIED_PIPELINE` transition flag are all removed. Net −1.7k LOC.

Agent
- New internal `pipeline::repo_view::RepoView` (non-persisted) replaces the
  `TrackedRepository` model; it's projected from an `OnboardedTarget` + its code
  artifact by `RepoView::from_target` (the old `repo_view_from_target`), so the
  scan/PR-review pipeline is byte-for-byte the same behaviour it already ran on
  the unified path — only the type's origin changed.
- `run_scan` always runs the unified `run_target`; the legacy `orchestrator::run`
  and the `unified_pipeline` flag are gone. `run_pr_review` resolves the target
  from `onboarded_targets`.
- Webhooks (github/gitea/gitlab), the CVE monitor, graph build, chat embeddings,
  health stats, and the pentest repo lookup all read `onboarded_targets`.
- `delete_target` now cascades the full downstream set (findings, sbom, scans,
  cve, tracker issues, graph, embeddings, DAST targets + pentest sessions and
  their children) — matching the old repository delete.
- `get_ssh_public_key` moved to the health handler; `repositories()` accessor,
  `repos.rs`, and `migrate/` deleted.

Core
- `TrackedRepository` removed; `ScanTrigger` stays. `unified_pipeline` config
  field removed.

Dashboard
- Repositories page + route deleted; overview / graph / chat / pentest-wizard
  read onboarded targets; `infrastructure/repositories.rs` trimmed to just the
  SSH-key fetch.

Tests
- Legacy repositories-API and migration integration tests removed; tenant
  isolation, cascade-delete, and stats tests repointed to `/targets` /
  `onboarded_targets`. `git.rs` gains a `sanitize_repo_dir` unit test.

Local: fmt clean; agent/mcp clippy clean; dashboard server+web compile; core +
agent lib tests (32) pass; integration tests compile.

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

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/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,
-        }
-    }
-}