@braidhq/server 0.2.1 → 0.3.0

package/README.md

@@ -21,6 +21,8 @@ Two layers share this package for now.
 
 A future app, a story world or a research-notes base, reuses the kernel and swaps the preset for its own ontology and adapters. When that second worldview arrives, the coding preset extracts into its own package, `@braidhq/preset-code`, and this package drops its plugin dependencies. Until a second worldview exists that pressure is speculative, so both layers stay here at no cost. The seam is `composeApp`: whatever the kernel reaches without a concrete plugin already belongs to it.
 
+Such an app does not have to reimplement the runtime to get there. `composeFsAppWithRegistry(buildRegistry, options)` runs the same filesystem assembly as `composeFsApp`, the subprocess skill runner, the fs unit lister, and every fs repository, over a registry the caller builds. `composeFsApp` is that call with the preset's bundle.
+
 ## Structure
 
 The package layers outward from core. Infrastructure implements core's ports, routes expose them, and composition binds the two.
@@ -49,7 +51,7 @@ src/
     └── _shared/      cross-cutting fs plumbing, paths, json store, frontmatter
 ```
 
-- **composeApp / composeFsApp**: The kernel root and the coding preset. `composeApp` takes a deps object, registers no plugin, and defaults every unset port to an in-memory adapter. `composeFsApp` builds the filesystem, git, and vendor adapters, registers the default plugin bundle, then hands the result to `composeApp`. Production runs the latter. See Positioning above.
+- **composeApp / composeFsApp**: The kernel root and the coding preset. `composeApp` takes a deps object, registers no plugin, and defaults every unset port to an in-memory adapter. `composeFsAppWithRegistry` builds the filesystem, git, and vendor adapters over a caller-supplied registry, then hands the result to `composeApp`. `composeFsApp` is that call with the default bundle, and production runs it. See Positioning above.
 - **startup**: The two boot passes, `startupBeforeServe` and `startupAfterServe`. See Startup below for the full order.
 - **infrastructure**: The real adapters behind core's ports, grouped by domain concern to mirror `core/domain`, never by storage technology. Each folder owns one aggregate's adapter, so a future SQLite or Postgres store lands beside the filesystem one instead of in a separate `sql/` tree. `hitl/` persists proposals and clarifications, `workspace/` the graph and workspace files, `history/` records every change as a git commit, `skill/` runs a skill as a subprocess and streams its events back. `_shared/` holds the cross-cutting fs plumbing, its underscore marking it as the one folder that is not a domain concern, matching `routes/_shared.ts`. `users/ auth/ secrets/ oauth/` are host services with no core port.
 - **routes**: One `createXxxRouter(deps)` per resource, each taking only the services it needs. Bodies validate through zod, path ids parse through their branded schema.

package/dist/app.d.ts.map

@@ -1 +1 @@
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+{"version":3,"file":"app.d.ts","sourceRoot":"","sources":["../src/app.ts"],"names":[],"mappings":"AAAA,OAAO,KAAK,EAAE,eAAe,EAAE,MAAM,iBAAiB,CAAA;AACtD,OAAO,EAAE,WAAW,EAAE,MAAM,mBAAmB,CAAA;AAgC/C,MAAM,WAAW,UAAU;IACzB,QAAQ,CAAC,WAAW,CAAC,EAAE,SAAS,MAAM,EAAE,CAAA;IACxC;;;;;;;OAOG;IACH,QAAQ,CAAC,MAAM,CAAC,EAAE,MAAM,CAAA;CACzB;AAED,wBAAgB,SAAS,CAAC,IAAI,EAAE,eAAe,EAAE,OAAO,GAAE,UAAe,GAAG,WAAW,CA8NtF"}

package/dist/app.js

@@ -13,7 +13,7 @@ import { healthRouter } from './routes/health.js';
 import { createHistoryRouter } from './routes/history.js';
 import { createModelRouter } from './routes/model.js';
 import { createNodesRouter } from './routes/nodes.js';
-import { createOAuthRouter } from './routes/oauth.js';
+import { createOAuthCallbackRouter, createOAuthStartRouter, OAuthFlowStore } from './routes/oauth.js';
 import { createOntologiesRouter } from './routes/ontologies.js';
 import { createOntologyRouter } from './routes/ontology.js';
 import { createProposalsRouter } from './routes/proposals.js';
@@ -21,6 +21,7 @@ import { createReactorCyclesRouter } from './routes/reactorCycles.js';
 import { createRunsRouter } from './routes/runs.js';
 import { createSkillInputOptionsRouter } from './routes/skillInputOptions.js';
 import { createSkillsRouter } from './routes/skills.js';
+import { createSourceConnectionRouter } from './routes/sourceConnection.js';
 import { createSourceLoadersRouter } from './routes/sourceLoaders.js';
 import { createSourceUnitObservationsRouter } from './routes/sourceUnitObservations.js';
 import { createGithubWebhookReceiver, createSourceWebhooksAdminRouter } from './routes/sourceWebhooks.js';
@@ -74,6 +75,7 @@ export function createApp(deps, options = {}) {
         sourceLoaderRunner: deps.sourceLoaderRunner,
         workspacesRoot: deps.workspacesRoot,
         pluginRegistry: deps.pluginRegistry,
+        ...(deps.defaultOntologyId ? { defaultOntologyId: deps.defaultOntologyId } : {}),
         ...(deps.bootstrap ? { bootstrap: deps.bootstrap } : {}),
         ...(deps.workspaceRegistry ? { workspaceRegistry: deps.workspaceRegistry } : {}),
         ...(deps.userRegistry ? { userRegistry: deps.userRegistry } : {}),
@@ -98,6 +100,9 @@ export function createApp(deps, options = {}) {
             pluginRegistry: deps.pluginRegistry,
         }));
     }
+    // Shared by the OAuth start and callback routers,
+    // so a flow opened by start is resolved by callback.
+    const oauthFlowStore = new OAuthFlowStore();
     // Workspace-scoped sub-app, mounted under `/workspaces/:workspaceId` below.
     const workspaceScoped = new OpenAPIHono();
     workspaceScoped.use('*', workspaceIdMiddleware);
@@ -173,6 +178,7 @@ export function createApp(deps, options = {}) {
             pluginRegistry: deps.pluginRegistry,
             ...(options.apiUrl ? { apiUrl: options.apiUrl } : {}),
         }));
+        workspaceScoped.route('/source-connections', createSourceConnectionRouter({ secretStore: deps.secretStore, workspaceService: deps.workspaceService }));
     }
     workspaceScoped.route('/skill-input-options', createSkillInputOptionsRouter({
         modelRepository: deps.modelRepository,
@@ -194,9 +200,23 @@ export function createApp(deps, options = {}) {
     }
     app.route('/workspaces/:workspaceId', workspaceScoped);
     if (deps.secretStore) {
-        app.route('/oauth', createOAuthRouter({
+        // Start is owner-gated in-handler,
+        // so an existing workspace needs `workspace.write`,
+        // while the Wizard can connect before scaffold.
+        app.route('/oauth', createOAuthStartRouter({
             secretStore: deps.secretStore,
+            flowStore: oauthFlowStore,
             ...(deps.googleOAuth ? { google: deps.googleOAuth } : {}),
+            ...(deps.githubOAuth ? { github: deps.githubOAuth } : {}),
+            ...(deps.userRegistry ? { userRegistry: deps.userRegistry } : {}),
+            workspaceService: deps.workspaceService,
+            ...(deps.workspaceRegistry ? { workspaceRegistry: deps.workspaceRegistry } : {}),
+        }));
+        app.route('/oauth', createOAuthCallbackRouter({
+            secretStore: deps.secretStore,
+            flowStore: oauthFlowStore,
+            ...(deps.googleOAuth ? { google: deps.googleOAuth } : {}),
+            ...(deps.githubOAuth ? { github: deps.githubOAuth } : {}),
         }));
     }
     // OpenAPI 3 spec, consumed by openapi-mcp-gateway, to surface REST operations as MCP tools.
@@ -204,8 +224,12 @@ export function createApp(deps, options = {}) {
     // they mount plain Hono sub-routers, so they never register with the doc.
     // The `servers[]` block lets the gateway resolve the upstream base URL,
     // without an explicit --base-url flag.
-    app.doc('/openapi.json', {
-        openapi: '3.0.0',
+    // 3.1 so schemas are JSON Schema 2020-12,
+    // the dialect a tool `input_schema` is validated against.
+    // A 3.0 doc emits `nullable` and boolean `exclusiveMinimum`,
+    // which the model API rejects once the gateway forwards them as MCP tool schemas.
+    app.doc31('/openapi.json', {
+        openapi: '3.1.0',
         info: {
             title: 'Braid REST API',
             version: '0.0.1',

package/dist/app.js.map

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package/dist/composeApp.d.ts

@@ -1,8 +1,9 @@
 import type { BatchPlanRepository, ClarificationRepository, Clock, ModelRepository, ModelSerializer, ProposalRepository, ReactorCycleRepository, RunRepository, SkillRegistry, SkillRunner, SourceUnitDigest, SourceUnitObservationRepository, UnitLister, UserDirectory, WorkspaceBootstrapService, WorkspaceEventBus, WorkspaceHistory, WorkspaceRepository } from '@braidhq/core';
-import type { AbsolutePath } from '@braidhq/schema';
+import type { AbsolutePath, OntologyId } from '@braidhq/schema';
 import type { AuthMode } from './authMode.js';
 import type { AccessPolicy } from './infrastructure/auth/AccessPolicy.js';
 import type { SessionStore } from './infrastructure/auth/SessionStore.js';
+import type { GitHubOAuth } from './infrastructure/oauth/GitHubOAuth.js';
 import type { GoogleOAuth } from './infrastructure/oauth/GoogleOAuth.js';
 import type { SecretStore } from './infrastructure/secrets/SecretStore.js';
 import type { UserRegistryFile } from './infrastructure/users/UserRegistryFile.js';
@@ -38,6 +39,7 @@ export interface AppDependencies {
     pluginRegistry: PluginRegistry;
     clock: Clock;
     workspacesRoot: AbsolutePath;
+    defaultOntologyId?: OntologyId;
     bootstrap?: WorkspaceBootstrapService;
     authMode: AuthMode;
     userRegistry?: UserRegistryFile;
@@ -46,6 +48,7 @@ export interface AppDependencies {
     accessPolicy?: AccessPolicy;
     secretStore?: SecretStore;
     googleOAuth?: GoogleOAuth;
+    githubOAuth?: GitHubOAuth;
     studioUrl?: string;
 }
 /**
@@ -75,6 +78,7 @@ export interface ComposeOptions {
     userDirectory?: UserDirectory;
     authMode?: AuthMode;
     workspacesRoot?: AbsolutePath;
+    defaultOntologyId?: OntologyId;
 }
 export declare function composeApp(options?: ComposeOptions): AppDependencies;
 //# sourceMappingURL=composeApp.d.ts.map

package/dist/composeApp.d.ts.map

@@ -1 +1 @@
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package/dist/composeApp.js

@@ -10,6 +10,11 @@ export function composeApp(options = {}) {
     const modelRepository = options.modelRepository ?? new InMemoryModelRepository();
     const workspaceRepository = options.workspaceRepository ?? new InMemoryWorkspaceRepository();
     const pluginRegistry = options.pluginRegistry ?? new PluginRegistry();
+    // A build registering exactly one ontology has no ambiguity to resolve,
+    // so a scaffold that names none gets that one rather than a hardwired id.
+    const ontologies = pluginRegistry.ontologies();
+    const defaultOntologyId = options.defaultOntologyId
+        ?? (ontologies.length === 1 ? ontologies[0]?.ontologyId : undefined);
     const eventBus = options.eventBus ?? new InMemoryWorkspaceEventBus();
     const workspaceService = new WorkspaceService({ workspaceRepository, pluginRegistry });
     const modelService = new ModelService({ modelRepository });
@@ -118,6 +123,7 @@ export function composeApp(options = {}) {
         skillRunner: options.skillRunner,
         runRepository: options.runRepository ?? new NoopRunRepository(),
         workspacesRoot: options.workspacesRoot ?? join(tmpdir(), 'braid-workspaces'),
+        ...(defaultOntologyId ? { defaultOntologyId } : {}),
         // `composeApp` is the test and in-memory composition entry.
         // It defaults to local trust, the local-user fallback,
         // so a test that wires a sessionStore still resolves a caller.

package/dist/composeApp.js.map

@@ -1 +1 @@
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+{"version":3,"file":"composeApp.js","sourceRoot":"","sources":["../src/composeApp.ts"],"names":[],"mappings":"AA6BA,OAAO,EAAE,MAAM,EAAE,MAAM,SAAS,CAAA;AAChC,OAAO,EAAE,IAAI,EAAE,MAAM,WAAW,CAAA;AAChC,OAAO,EACL,YAAY,EACZ,YAAY,EACZ,cAAc,EACd,WAAW,EACX,YAAY,EACZ,sBAAsB,EACtB,cAAc,EACd,cAAc,EACd,kBAAkB,EAClB,4BAA4B,EAC5B,WAAW,EACX,eAAe,EACf,aAAa,EACb,gBAAgB,GACjB,MAAM,eAAe,CAAA;AACtB,OAAO,EACL,+BAA+B,EAC/B,uBAAuB,EACvB,0BAA0B,EAC1B,8BAA8B,EAC9B,uCAAuC,EACvC,yBAAyB,EACzB,2BAA2B,EAC3B,iBAAiB,GAClB,MAAM,yBAAyB,CAAA;AAChC,OAAO,EAAE,UAAU,EAAE,MAAM,eAAe,CAAA;AAsI1C,MAAM,UAAU,UAAU,CAAC,UAA0B,EAAE;IACrD,MAAM,KAAK,GAAG,OAAO,CAAC,KAAK,IAAI,IAAI,WAAW,EAAE,CAAA;IAChD,MAAM,kBAAkB,GAAG,OAAO,CAAC,kBAAkB,IAAI,IAAI,0BAA0B,EAAE,CAAA;IACzF,MAAM,uBAAuB,GAAG,OAAO,CAAC,uBAAuB,IAAI,IAAI,+BAA+B,EAAE,CAAA;IACxG,MAAM,eAAe,GAAG,OAAO,CAAC,eAAe,IAAI,IAAI,uBAAuB,EAAE,CAAA;IAChF,MAAM,mBAAmB,GAAG,OAAO,CAAC,mBAAmB,IAAI,IAAI,2BAA2B,EAAE,CAAA;IAC5F,MAAM,cAAc,GAAG,OAAO,CAAC,cAAc,IAAI,IAAI,cAAc,EAAE,CAAA;IACrE,wEAAwE;IACxE,0EAA0E;IAC1E,MAAM,UAAU,GAAG,cAAc,CAAC,UAAU,EAAE,CAAA;IAC9C,MAAM,iBAAiB,GAAG,OAAO,CAAC,iBAAiB;WAC9C,CAAC,UAAU,CAAC,MAAM,KAAK,CAAC,CAAC,CAAC,CAAC,UAAU,CAAC,CAAC,CAAC,EAAE,UAAU,CAAC,CAAC,CAAC,SAAS,CAAC,CAAA;IAEtE,MAAM,QAAQ,GAAG,OAAO,CAAC,QAAQ,IAAI,IAAI,yBAAyB,EAAE,CAAA;IACpE,MAAM,gBAAgB,GAAG,IAAI,gBAAgB,CAAC,EAAE,mBAAmB,EAAE,cAAc,EAAE,CAAC,CAAA;IACtF,MAAM,YAAY,GAAG,IAAI,YAAY,CAAC,EAAE,eAAe,EAAE,CAAC,CAAA;IAC1D,MAAM,sBAAsB,GAAG,IAAI,sBAAsB,CAAC,EAAE,cAAc,EAAE,CAAC,CAAA;IAC7E,MAAM,kBAAkB,GAAG,IAAI,kBAAkB,CAAC,EAAE,cAAc,EAAE,KAAK,EAAE,QAAQ,EAAE,CAAC,CAAA;IACtF,+EAA+E;IAC/E,MAAM,aAAa,GAAG,IAAI,aAAa,EAAE,CAAA;IACzC,MAAM,WAAW,GAAG,IAAI,WAAW,CAAC;QAClC,kBAAkB;QAClB,uBAAuB;QACvB,eAAe;QACf,sBAAsB;QACtB,gBAAgB;QAChB,KAAK;QACL,QAAQ;QACR,aAAa;QACb,GAAG,CAAC,OAAO,CAAC,OAAO,CAAC,CAAC,CAAC,EAAE,OAAO,EAAE,OAAO,CAAC,OAAO,EAAE,CAAC,CAAC,CAAC,EAAE,CAAC;QACxD,GAAG,CAAC,OAAO,CAAC,eAAe,CAAC,CAAC,CAAC,EAAE,eAAe,EAAE,OAAO,CAAC,eAAe,EAAE,CAAC,CAAC,CAAC,EAAE,CAAC;QAChF,GAAG,CAAC,OAAO,CAAC,aAAa,CAAC,CAAC,CAAC,EAAE,aAAa,EAAE,OAAO,CAAC,aAAa,EAAE,CAAC,CAAC,CAAC,EAAE,CAAC;KAC3E,CAAC,CAAA;IAEF,MAAM,cAAc,GAAG,OAAO,CAAC,OAAO,IAAI,OAAO,CAAC,SAAS;QACzD,CAAC,CAAC,IAAI,cAAc,CAAC;YACnB,OAAO,EAAE,OAAO,CAAC,OAAO;YACxB,gBAAgB;YAChB,aAAa;YACb,SAAS,EAAE,OAAO,CAAC,SAAS;YAC5B,aAAa,EAAE,OAAO,CAAC,aAAa,IAAI,IAAI,iBAAiB,EAAE;YAC/D,GAAG,CAAC,OAAO,CAAC,WAAW,CAAC,CAAC,CAAC,EAAE,WAAW,EAAE,OAAO,CAAC,WAAW,EAAE,CAAC,CAAC,CAAC,EAAE,CAAC;YACpE,GAAG,CAAC,OAAO,CAAC,aAAa,CAAC,CAAC,CAAC,EAAE,aAAa,EAAE,OAAO,CAAC,aAAa,EAAE,CAAC,CAAC,CAAC,EAAE,CAAC;YAC1E,QAAQ;YACR,KAAK;SACN,CAAC;QACF,CAAC,CAAC,SAAS,CAAA;IAEb,MAAM,+BAA+B,GAAG,OAAO,CAAC,+BAA+B,IAAI,IAAI,uCAAuC,EAAE,CAAA;IAChI,MAAM,gBAAgB,GAAG,OAAO,CAAC,gBAAgB,IAAI,IAAI,uBAAuB,EAAE,CAAA;IAClF,MAAM,4BAA4B,GAAG,IAAI,4BAA4B,CAAC;QACpE,UAAU,EAAE,+BAA+B;QAC3C,MAAM,EAAE,gBAAgB;QACxB,gBAAgB;QAChB,KAAK;KACN,CAAC,CAAA;IAEF,8EAA8E;IAC9E,0CAA0C;IAC1C,MAAM,YAAY,GAAG,cAAc,IAAI,OAAO,CAAC,WAAW,IAAI,OAAO,CAAC,mBAAmB,IAAI,OAAO,CAAC,UAAU;QAC7G,CAAC,CAAC,IAAI,YAAY,CAAC;YACjB,gBAAgB;YAChB,WAAW,EAAE,OAAO,CAAC,WAAW;YAChC,kBAAkB;YAClB,uBAAuB;YACvB,cAAc;YACd,WAAW;YACX,mBAAmB,EAAE,OAAO,CAAC,mBAAmB;YAChD,UAAU,EAAE,OAAO,CAAC,UAAU;YAC9B,cAAc;YACd,QAAQ;YACR,aAAa;YACb,KAAK;YACL,4BAA4B;SAC7B,CAAC;QACF,CAAC,CAAC,SAAS,CAAA;IAEb,0EAA0E;IAC1E,wDAAwD;IACxD,8CAA8C;IAC9C,sEAAsE;IACtE,6CAA6C;IAC7C,iDAAiD;IACjD,MAAM,sBAAsB,GACxB,OAAO,CAAC,sBAAsB,IAAI,IAAI,8BAA8B,EAAE,CAAA;IAC1E,MAAM,cAAc,GAAG,OAAO,CAAC,WAAW,IAAI,OAAO,CAAC,UAAU,IAAI,gBAAgB,IAAI,CAAC,CAAC,gBAAgB,YAAY,uBAAuB,CAAC;QAC5I,CAAC,CAAC,IAAI,cAAc,CAAC;YACnB,QAAQ;YACR,gBAAgB;YAChB,cAAc;YACd,WAAW,EAAE,OAAO,CAAC,WAAW;YAChC,4BAA4B;YAC5B,UAAU,EAAE,OAAO,CAAC,UAAU;YAC9B,GAAG,CAAC,OAAO,CAAC,YAAY,CAAC,CAAC,CAAC,EAAE,YAAY,EAAE,OAAO,CAAC,YAAY,EAAE,CAAC,CAAC,CAAC,EAAE,CAAC;YACvE,MAAM,EAAE,gBAAgB;YACxB,sBAAsB;YACtB,aAAa;YACb,KAAK;YACL,MAAM,EAAE,YAAY,CAAC,SAAS,CAAC;YAC/B,SAAS,EAAE,IAAI,eAAe,EAAE;SACjC,CAAC;QACF,CAAC,CAAC,SAAS,CAAA;IAEb,OAAO;QACL,gBAAgB;QAChB,WAAW;QACX,GAAG,CAAC,cAAc,CAAC,CAAC,CAAC,EAAE,cAAc,EAAE,CAAC,CAAC,CAAC,EAAE,CAAC;QAC7C,GAAG,CAAC,YAAY,CAAC,CAAC,CAAC,EAAE,YAAY,EAAE,CAAC,CAAC,CAAC,EAAE,CAAC;QACzC,GAAG,CAAC,cAAc,CAAC,CAAC,CAAC,EAAE,cAAc,EAAE,CAAC,CAAC,CAAC,EAAE,CAAC;QAC7C,sBAAsB;QACtB,GAAG,CAAC,OAAO,CAAC,UAAU,CAAC,CAAC,CAAC,EAAE,UAAU,EAAE,OAAO,CAAC,UAAU,EAAE,CAAC,CAAC,CAAC,EAAE,CAAC;QACjE,GAAG,CAAC,OAAO,CAAC,gBAAgB,CAAC,CAAC,CAAC,EAAE,gBAAgB,EAAE,OAAO,CAAC,gBAAgB,EAAE,CAAC,CAAC,CAAC,EAAE,CAAC;QACnF,GAAG,CAAC,OAAO,CAAC,SAAS,CAAC,CAAC,CAAC,EAAE,SAAS,EAAE,OAAO,CAAC,SAAS,EAAE,CAAC,CAAC,CAAC,EAAE,CAAC;QAC9D,4BAA4B;QAC5B,YAAY;QACZ,sBAAsB;QACtB,kBAAkB;QAClB,QAAQ;QACR,cAAc;QACd,kBAAkB;QAClB,uBAAuB;QACvB,eAAe;QACf,mBAAmB;QACnB,aAAa,EAAE,OAAO,CAAC,aAAa;QACpC,WAAW,EAAE,OAAO,CAAC,WAAW;QAChC,aAAa,EAAE,OAAO,CAAC,aAAa,IAAI,IAAI,iBAAiB,EAAE;QAC/D,cAAc,EAAE,OAAO,CAAC,cAAc,IAAK,IAAI,CAAC,MAAM,EAAE,EAAE,kBAAkB,CAAkB;QAC9F,GAAG,CAAC,iBAAiB,CAAC,CAAC,CAAC,EAAE,iBAAiB,EAAE,CAAC,CAAC,CAAC,EAAE,CAAC;QACnD,4DAA4D;QAC5D,uDAAuD;QACvD,+DAA+D;QAC/D,QAAQ,EAAE,OAAO,CAAC,QAAQ,IAAI,UAAU;QACxC,KAAK;KACN,CAAA;AACH,CAAC;AAED,oFAAoF;AACpF,8EAA8E;AAC9E,qDAAqD;AACr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package/dist/composeFsApp.d.ts

@@ -1,19 +1,56 @@
 import type { AgentPlugin, OntologyPlugin, SourceLoaderPlugin, StoragePlugin } from '@braidhq/core';
-import type { AgentEffort, StorageKind } from '@braidhq/schema';
+import type { AgentEffort, OntologyId, StorageKind } from '@braidhq/schema';
 import type { AppDependencies } from './composeApp.js';
+import { PluginRegistry } from '@braidhq/core';
 import { AgentKind } from '@braidhq/schema';
-export interface ComposeFsOptions {
+import { GitHubOAuth } from './infrastructure/oauth/GitHubOAuth.js';
+import { GoogleOAuth } from './infrastructure/oauth/GoogleOAuth.js';
+import { type SecretStore } from './infrastructure/secrets/SecretStore.js';
+export interface ComposeFsRuntimeOptions {
     readonly braidHome?: string;
     readonly apiUrl?: string;
     readonly storageKind?: StorageKind;
     readonly agentKind?: AgentKind;
     readonly agentModel?: string;
     readonly agentEffort?: AgentEffort;
+    readonly defaultOntologyId?: OntologyId;
+}
+export interface ExtraPluginOptions {
     readonly extraStoragePlugins?: readonly StoragePlugin[];
     readonly extraOntologyPlugins?: readonly OntologyPlugin[];
     readonly extraSourceLoaderPlugins?: readonly SourceLoaderPlugin[];
     readonly extraAgentPlugins?: readonly AgentPlugin[];
 }
+export type ComposeFsOptions = ComposeFsRuntimeOptions & ExtraPluginOptions;
+/**
+ * What the fs runtime has already built by the time it asks for a registry.
+ * The OAuth-backed loaders need the secret store and the provider clients,
+ * both derived from `braidHome` and `apiUrl`, so a caller-supplied plugin
+ * reads them from here rather than rebuilding them.
+ * `googleOAuth` and `githubOAuth` are absent when their env is unset.
+ */
+export interface FsRuntimeContext {
+    readonly braidHome: string;
+    readonly apiUrl: string;
+    readonly secretStore: SecretStore;
+    readonly googleOAuth?: GoogleOAuth;
+    readonly githubOAuth?: GitHubOAuth;
+}
+/** Yields the registry the fs runtime resolves storage, agent, and ontology from. */
+export type PluginRegistryFactory = (context: FsRuntimeContext) => PluginRegistry | Promise<PluginRegistry>;
+/**
+ * The source loaders a default Braid build ships with.
+ * Exported so a third-party composition can take the git, github, and drive
+ * loaders without inheriting the rest of the coding preset.
+ */
+export declare function defaultSourceLoaderPlugins(context: FsRuntimeContext): readonly SourceLoaderPlugin[];
+/**
+ * The registry `composeFsApp` runs on, the coding preset's whole bundle.
+ * Defaults register first, then the caller's extras,
+ * so `extraOntologyPlugins: [c4]` yields both ddd and c4.
+ * The active one is chosen per-workspace via PRODUCT.md.ontologyId.
+ */
+export declare function defaultPluginRegistry(context: FsRuntimeContext, options?: ExtraPluginOptions): PluginRegistry;
 /**
  * Opinionated production composition, the coding preset.
  * Filesystem-persists workspaces, proposals, and clarifications,
@@ -21,7 +58,16 @@ export interface ComposeFsOptions {
  * loaders, and the claude-code agent.
  *
  * To run a different plugin set, either pass `extraXxxPlugins` and flip
- * `storageKind` or `agentKind`, or call `composeApp` with your own registry.
+ * `storageKind` or `agentKind`, or hand `composeFsAppWithRegistry` a registry
+ * holding only the plugins you want.
  */
 export declare function composeFsApp(options?: ComposeFsOptions): Promise<AppDependencies>;
+/**
+ * The same filesystem runtime as `composeFsApp`, over a registry you build.
+ * Storage and agent resolve from whatever `buildRegistry` registered, under
+ * `storageKind` and `agentKind`, so a composition that omits the coding
+ * preset's ontology and loaders still gets the subprocess skill runner, the
+ * fs unit lister, and every fs repository, and so a batch runs unchanged.
+ */
+export declare function composeFsAppWithRegistry(buildRegistry: PluginRegistryFactory, options?: ComposeFsRuntimeOptions): Promise<AppDependencies>;
 //# sourceMappingURL=composeFsApp.d.ts.map

package/dist/composeFsApp.d.ts.map

@@ -1 +1 @@
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package/dist/composeFsApp.js

@@ -6,7 +6,6 @@ import { fileURLToPath } from 'node:url';
 import { claudeCodeAgentPlugin } from '@braidhq/agent-claude-code';
 import { builtinSkillsRoot, NotFoundError, PluginRegistry, ValidationError, WorkspaceBootstrapService, } from '@braidhq/core';
 import { InMemoryWorkspaceEventBus } from '@braidhq/core/in-memory';
-import { dddOntology } from '@braidhq/ontology-ddd';
 import { AgentId, AgentKind, StorageKind as StorageKindSchema } from '@braidhq/schema';
 import { createGoogleDriveLoader } from '@braidhq/source-loader-gdrive';
 import { gitLoader } from '@braidhq/source-loader-git';
@@ -14,6 +13,7 @@ import { createGithubLoader } from '@braidhq/source-loader-github';
 import { kuzuStoragePlugin } from '@braidhq/storage-kuzu';
 import { authenticated, localTrust } from './authMode.js';
 import { composeApp } from './composeApp.js';
+import { defaultOntologyPlugins } from './defaultOntologyPlugins.js';
 import { parseBoolEnv } from './infrastructure/_shared/env.js';
 import { AccessPolicy } from './infrastructure/auth/AccessPolicy.js';
 import { FsSessionStore } from './infrastructure/auth/SessionStore.js';
@@ -22,11 +22,13 @@ import { GitWorkspaceHistory } from './infrastructure/history/GitWorkspaceHistor
 import { FsClarificationRepository } from './infrastructure/hitl/FsClarificationRepository.js';
 import { FsProposalRepository } from './infrastructure/hitl/FsProposalRepository.js';
 import { FsModelSerializer } from './infrastructure/model/FsModelSerializer.js';
+import { GitHubOAuth } from './infrastructure/oauth/GitHubOAuth.js';
 import { GoogleOAuth } from './infrastructure/oauth/GoogleOAuth.js';
+import { oauthNamespace } from './infrastructure/oauth/providers.js';
 import { FsReactorCycleRepository } from './infrastructure/reactor/FsReactorCycleRepository.js';
 import { FsSecretStore } from './infrastructure/secrets/SecretStore.js';
 import { FsRunRepository } from './infrastructure/skill/FsRunRepository.js';
-import { FsSkillRegistry } from './infrastructure/skill/FsSkillRegistry.js';
+import { BUILTIN_SKILL_NAMESPACE, FsSkillRegistry } from './infrastructure/skill/FsSkillRegistry.js';
 import { SubprocessSkillRunner } from './infrastructure/skill/SubprocessSkillRunner.js';
 import { FsSourceUnitDigest } from './infrastructure/source/FsSourceUnitDigest.js';
 import { FsSourceUnitObservationRepository } from './infrastructure/source/FsSourceUnitObservationRepository.js';
@@ -41,11 +43,71 @@ import { ensureServiceAccount, REACTOR_USER_ID } from './serviceAccounts.js';
 import { startupBeforeServe } from './startup.js';
 // The coding preset's default plugin identities, its worldview in one place.
 // A caller overrides any of these through ComposeFsOptions,
-// or drops to composeApp with its own PluginRegistry for a different worldview.
+// or hands composeFsAppWithRegistry its own PluginRegistry,
+// for a different worldview over the same runtime.
 const DEFAULT_STORAGE_KIND = 'kuzu';
 const DEFAULT_AGENT_KIND = 'claude-code';
 const DEFAULT_AGENT_MODEL = 'opus';
 const DEFAULT_AGENT_EFFORT = 'high';
+/**
+ * The source loaders a default Braid build ships with.
+ * Exported so a third-party composition can take the git, github, and drive
+ * loaders without inheriting the rest of the coding preset.
+ */
+export function defaultSourceLoaderPlugins(context) {
+    const { secretStore, githubOAuth, googleOAuth } = context;
+    return [
+        gitLoader,
+        createGithubLoader({
+            resolveAccessToken: makeOAuthTokenResolver({
+                secretStore,
+                namespace: oauthNamespace('github'),
+                refresh: githubOAuth ? refreshToken => githubOAuth.refreshAccessToken(refreshToken) : undefined,
+                notConfigured: sourceId => new ValidationError(`GitHub source "${sourceId}" cannot be loaded: set BRAID_GITHUB_CLIENT_ID and BRAID_GITHUB_CLIENT_SECRET on the server, restart, then reconnect.`),
+                notConnected: (workspaceId, sourceId) => new NotFoundError(`GitHub source "${sourceId}" on workspace "${workspaceId}" is not connected. `
+                    + `Connect it from the source settings in Studio.`),
+            }),
+        }),
+        // Drive is listed even when its OAuth env is unset,
+        // so a `kind: gdrive` source resolves a loader instead of failing lookup.
+        // The token resolver then throws at provision time,
+        // naming the env vars the user has to set.
+        createGoogleDriveLoader({
+            resolveAccessToken: makeOAuthTokenResolver({
+                secretStore,
+                namespace: oauthNamespace('google'),
+                refresh: googleOAuth ? refreshToken => googleOAuth.refreshAccessToken(refreshToken) : undefined,
+                notConfigured: sourceId => new ValidationError(`Google Drive source "${sourceId}" cannot be loaded: set BRAID_GOOGLE_CLIENT_ID and BRAID_GOOGLE_CLIENT_SECRET on the server, restart, then re-sync.`),
+                notConnected: (workspaceId, sourceId) => new NotFoundError(`Google Drive source "${sourceId}" on workspace "${workspaceId}" is not connected. `
+                    + `Connect it from the source settings in Studio.`),
+            }),
+        }),
+    ];
+}
+/**
+ * The registry `composeFsApp` runs on, the coding preset's whole bundle.
+ * Defaults register first, then the caller's extras,
+ * so `extraOntologyPlugins: [c4]` yields both ddd and c4.
+ * The active one is chosen per-workspace via PRODUCT.md.ontologyId.
+ */
+export function defaultPluginRegistry(context, options = {}) {
+    const pluginRegistry = new PluginRegistry();
+    pluginRegistry.register(kuzuStoragePlugin);
+    for (const plugin of options.extraStoragePlugins ?? [])
+        pluginRegistry.register(plugin);
+    for (const plugin of defaultOntologyPlugins())
+        pluginRegistry.register(plugin);
+    for (const plugin of options.extraOntologyPlugins ?? [])
+        pluginRegistry.register(plugin);
+    for (const plugin of defaultSourceLoaderPlugins(context))
+        pluginRegistry.register(plugin);
+    for (const plugin of options.extraSourceLoaderPlugins ?? [])
+        pluginRegistry.register(plugin);
+    pluginRegistry.register(claudeCodeAgentPlugin);
+    for (const plugin of options.extraAgentPlugins ?? [])
+        pluginRegistry.register(plugin);
+    return pluginRegistry;
+}
 /**
  * Opinionated production composition, the coding preset.
  * Filesystem-persists workspaces, proposals, and clarifications,
@@ -53,9 +115,20 @@ const DEFAULT_AGENT_EFFORT = 'high';
  * loaders, and the claude-code agent.
  *
  * To run a different plugin set, either pass `extraXxxPlugins` and flip
- * `storageKind` or `agentKind`, or call `composeApp` with your own registry.
+ * `storageKind` or `agentKind`, or hand `composeFsAppWithRegistry` a registry
+ * holding only the plugins you want.
  */
 export async function composeFsApp(options = {}) {
+    return composeFsAppWithRegistry(context => defaultPluginRegistry(context, options), options);
+}
+/**
+ * The same filesystem runtime as `composeFsApp`, over a registry you build.
+ * Storage and agent resolve from whatever `buildRegistry` registered, under
+ * `storageKind` and `agentKind`, so a composition that omits the coding
+ * preset's ontology and loaders still gets the subprocess skill runner, the
+ * fs unit lister, and every fs repository, and so a batch runs unchanged.
+ */
+export async function composeFsAppWithRegistry(buildRegistry, options = {}) {
     const braidHome = options.braidHome ?? process.env.BRAID_HOME ?? join(homedir(), '.braid');
     const apiUrl = options.apiUrl ?? 'http://localhost:4321';
     const secretStore = new FsSecretStore(join(braidHome, 'secrets'));
@@ -71,6 +144,16 @@ export async function composeFsApp(options = {}) {
             loginRedirectUri: googleLoginRedirect,
         })
         : undefined;
+    const githubClientId = process.env.BRAID_GITHUB_CLIENT_ID;
+    const githubClientSecret = process.env.BRAID_GITHUB_CLIENT_SECRET;
+    const githubRedirect = process.env.BRAID_GITHUB_REDIRECT_URI ?? `${apiUrl}/oauth/github/callback`;
+    const githubOAuth = githubClientId && githubClientSecret
+        ? new GitHubOAuth({
+            clientId: githubClientId,
+            clientSecret: githubClientSecret,
+            redirectUri: githubRedirect,
+        })
+        : undefined;
     const registry = new WorkspaceRegistryFile(join(braidHome, 'workspaces.json'));
     const workspaceRepository = new FsWorkspaceRepository({ registry });
     // Server-side user roster, distinct from any workspace's git history.
@@ -113,53 +196,13 @@ export async function composeFsApp(options = {}) {
     };
     const proposalRepository = new FsProposalRepository({ workspaceRoots });
     const clarificationRepository = new FsClarificationRepository({ workspaceRoots });
-    // Plugin registration. Defaults bundle first, then extras,
-    // so a caller passing `extraOntologyPlugins: [c4]` gets both ddd and c4.
-    // The active one is chosen per-workspace via PRODUCT.md.ontologyId.
-    const pluginRegistry = new PluginRegistry();
-    pluginRegistry.register(kuzuStoragePlugin);
-    for (const plugin of options.extraStoragePlugins ?? [])
-        pluginRegistry.register(plugin);
-    pluginRegistry.register(dddOntology);
-    for (const plugin of options.extraOntologyPlugins ?? [])
-        pluginRegistry.register(plugin);
-    pluginRegistry.register(gitLoader);
-    pluginRegistry.register(createGithubLoader());
-    for (const plugin of options.extraSourceLoaderPlugins ?? [])
-        pluginRegistry.register(plugin);
-    pluginRegistry.register(claudeCodeAgentPlugin);
-    for (const plugin of options.extraAgentPlugins ?? [])
-        pluginRegistry.register(plugin);
-    // The gdrive loader is always registered,
-    // so a `kind: gdrive` source doesn't crash at plugin lookup.
-    // If OAuth env vars aren't configured,
-    // the token resolver throws an actionable error at provision time,
-    // so the user knows exactly what to set.
-    const oauth = googleOAuth;
-    pluginRegistry.register(createGoogleDriveLoader({
-        resolveAccessToken: async ({ workspaceId, sourceId }) => {
-            if (!oauth) {
-                throw new ValidationError(`Google Drive source "${sourceId}" cannot be loaded: set BRAID_GOOGLE_CLIENT_ID and BRAID_GOOGLE_CLIENT_SECRET on the server, restart, then re-sync.`);
-            }
-            const key = `${workspaceId}--${sourceId}`;
-            const stored = await secretStore.read('oauth-google', key);
-            if (!stored) {
-                throw new NotFoundError(`Google Drive source "${sourceId}" on workspace "${workspaceId}" is not connected. `
-                    + `Authorise via POST /oauth/google/start.`);
-            }
-            // 60-second skew, so we don't hand out a token about to expire mid-request.
-            const stillValidUntil = new Date(stored.expiresAt).getTime() - 60_000;
-            if (Date.now() < stillValidUntil)
-                return stored.accessToken;
-            const refreshed = await oauth.refreshAccessToken(stored.refreshToken);
-            await secretStore.write('oauth-google', key, {
-                ...stored,
-                accessToken: refreshed.accessToken,
-                expiresAt: refreshed.expiresAt,
-            });
-            return refreshed.accessToken;
-        },
-    }));
+    const pluginRegistry = await buildRegistry({
+        braidHome,
+        apiUrl,
+        secretStore,
+        ...(googleOAuth ? { googleOAuth } : {}),
+        ...(githubOAuth ? { githubOAuth } : {}),
+    });
     // Resolve the active storage plugin and ask it for a ModelRepository.
     const storageKind = StorageKindSchema.parse(options.storageKind ?? process.env.BRAID_STORAGE_KIND ?? DEFAULT_STORAGE_KIND);
     const modelRepository = await pluginRegistry.requireStoragePlugin(storageKind).createModelRepository({ kind: storageKind, config: {} }, {
@@ -206,16 +249,16 @@ export async function composeFsApp(options = {}) {
         console.warn('[braid] `uv` not found on PATH; the built-in braid-core MCP gateway will not be available. '
             + 'Install via `brew install uv` or https://docs.astral.sh/uv/ to enable.');
     }
-    // Build the list of reference dirs symlinked into every skill session:
-    // - builtin `shared/` from @braidhq/core,
-    //   format docs for Proposal, Clarification, Validator, content conventions,
-    //   and drift-detection guidance.
-    // - whatever each registered plugin contributes,
-    //   for example the concept doc from ontology-ddd.
+    // Reference dirs mounted into every skill session,
+    // keyed by the namespace that owns them, so each stays paired with its skills.
+    // Core's `shared/` lands under the builtin namespace,
+    // carrying the Proposal, Clarification, Validator, batch-plan, drift contracts.
+    // Each plugin's own dir lands under its namespace,
+    // the DDD concept doc under `ddd` for example.
     // Plugin contributions resolve `URL` to an absolute path.
     const pluginReferenceDirs = pluginRegistry.pluginReferenceDirs().map((ref) => {
         const dir = typeof ref.directory === 'string' ? ref.directory : fileURLToPath(ref.directory);
-        return { name: ref.name, path: dir };
+        return { skillNamespace: ref.skillNamespace, path: dir };
     });
     const skillRunner = new SubprocessSkillRunner({
         skillRegistry,
@@ -228,9 +271,16 @@ export async function composeFsApp(options = {}) {
             ? { coreGateway: { specUrl: `${apiUrl}/openapi.json`, uvxBin } }
             : {}),
         referenceDirs: [
-            { name: 'shared', path: join(builtinSkillsRoot, 'shared') },
+            { skillNamespace: BUILTIN_SKILL_NAMESPACE, path: join(builtinSkillsRoot, 'shared') },
             ...pluginReferenceDirs,
         ],
+        // Resolve the workspace's active ontology to its declared source roles.
+        // The runner serialises these into BRAID_SOURCE_ROLES,
+        // so a generic prompt reads the role vocabulary instead of naming role ids.
+        resolveSourceRoles: (workspace) => {
+            const ontology = pluginRegistry.findOntology(workspace.productManifest.ontologyId);
+            return ontology?.sourceRoles ?? [];
+        },
     });
     // Shared by WorkspaceBootstrapService (boot reconciliation),
     // and HITLService (per-mutation commits).
@@ -259,6 +309,7 @@ export async function composeFsApp(options = {}) {
         bootstrap,
         batchPlanRepository: new FsBatchPlanRepository(),
         unitLister: workspace => listUnitItems(workspace, unitBearingRolesOf(pluginRegistry, workspace)),
+        ...(options.defaultOntologyId ? { defaultOntologyId: options.defaultOntologyId } : {}),
         // The reactor has no human caller, so it acts as the `reactor` service account,
         // minting a short-lived session so its API calls authenticate.
         reactorToken: async () => (await sessionStore.issue(REACTOR_USER_ID, { ttlSeconds: 3600 })).token,
@@ -290,6 +341,42 @@ export async function composeFsApp(options = {}) {
         accessPolicy,
         studioUrl,
         ...(googleOAuth ? { googleOAuth } : {}),
+        ...(githubOAuth ? { githubOAuth } : {}),
+    };
+}
+/**
+ * Build a token resolver for an OAuth-backed loader.
+ * Returns a still-valid access token, or refreshes when it is near expiry.
+ * A failed refresh flags the source `needsAuth` so Studio prompts a reconnect,
+ * a fresh refresh clears that flag.
+ * `refresh` is absent when the provider's server env is unset,
+ * then the resolver throws `notConfigured`.
+ */
+function makeOAuthTokenResolver(deps) {
+    return async ({ workspaceId, sourceId }) => {
+        if (!deps.refresh)
+            throw deps.notConfigured(sourceId);
+        const key = `${workspaceId}--${sourceId}`;
+        const stored = await deps.secretStore.read(deps.namespace, key);
+        if (!stored)
+            throw deps.notConnected(workspaceId, sourceId);
+        // 60-second skew, so we don't hand out a token about to expire mid-request.
+        const stillValidUntil = new Date(stored.expiresAt).getTime() - 60_000;
+        if (Date.now() < stillValidUntil)
+            return stored.accessToken;
+        try {
+            // A fresh set clears any prior needs-auth marker.
+            // GitHub rotates its refresh token, so spreading `refreshed` keeps it.
+            const refreshed = await deps.refresh(stored.refreshToken);
+            await deps.secretStore.write(deps.namespace, key, { ...stored, ...refreshed, needsAuth: false });
+            return refreshed.accessToken;
+        }
+        catch (error) {
+            // The refresh token is dead, revoked or expired.
+            // Flag the source so Studio prompts a reconnect instead of only logging.
+            await deps.secretStore.write(deps.namespace, key, { ...stored, needsAuth: true });
+            throw error;
+        }
     };
 }
 function parseCsv(input) {