@descryy/mcp 0.11.5 → 0.11.7

package/dist/workspace-index.js

@@ -0,0 +1,381 @@
+/**
+ * `indexWorkspace` — the cross-repo counterpart of `analyze`'s single-repo run.
+ *
+ * Gap 1 of `documents/plans/site-claims-closure-production-plan.md`. A
+ * standalone function, **not** a second constructor on `Session` — see that
+ * plan section for why: `session.ts`'s own header states "one repo, one
+ * graph, one process", `DescryConfig` is singular throughout, and well over a
+ * dozen other tool files read `session.config`/`session.repoPath` as singular
+ * values. Widening `Session` itself would mean widening all of them. This
+ * function instead does, once per repository in a loop, exactly what
+ * `analyze.ts`'s `run()` already does once per source — load a repository's
+ * own configured sources, detect, emit, read its git history — and then
+ * merges and persists every repository's batches together in **one**
+ * `buildGraph`/`persistGraph` pass, into one shared store.
+ *
+ * Ported in spirit from `descry-desktop`'s `packages/session/src/indexing
+ * /index.ts` (`indexRepository`), which solved the same "index N
+ * repositories into one store" problem for the desktop app's engine. The
+ * adaptation reuses `descry-core`'s own existing per-repo pieces —
+ * `loadConfig`, `registry.ts`'s `loadSources`/`detectSources`, `analyze.ts`'s
+ * `optionalBatchLists`/`sourceFailureNote`/`sourceProvenanceNote` — instead of
+ * re-discovering adapters or re-deriving batch handling, because those
+ * already live in this package (`@descryy/mcp`) beside `analyze.ts`; there
+ * was nothing to extract into `@descryy/core`.
+ *
+ * ## Why every repository's batches are merged in one `buildGraph` call,
+ * ## not one call per repository
+ *
+ * `buildGraph`'s `JoinMetric`/`crossRepoJoins` (`packages/core/src/graph
+ * /build.ts`) is computed from the batches handed to *that one call*: it
+ * counts, per workspace-scoped node type, how many of the repositories
+ * represented **in that call** supplied a node with the same id. A
+ * `buildGraph` call given only one repository's batches at a time can never
+ * see two repositories agreeing on an id — `crossRepoJoinPossible` would be
+ * false for every type on every call, and the workspace join `analyze_workspace`
+ * exists to prove would be invisible in its own reply. So every repository in
+ * this call is read first, and their batches are combined into one list
+ * before `buildGraph` runs once — the same shape `analyze.ts` already uses
+ * for merging one repository's several *sources*, extended one level up to
+ * merging several *repositories*. `persistGraph` still writes each batch's
+ * rows under its own `producedBy` (DEC-014's per-adapter invalidation rule is
+ * unaffected — a batch is still a batch, whichever repository it came from).
+ *
+ * ## What this deliberately does not do
+ *
+ * Unlike `analyze.ts`'s `run()`, this does not mint edges from confirmed
+ * facts or re-project confirmed incidents — both are per-repository testimony
+ * recorded in that repository's own `.descry/config.json`, and folding them
+ * into a cross-repo indexing pass is a separate, unscoped question. A
+ * repository indexed through `indexWorkspace` gets the code-reading half of
+ * what `analyze` gives it; the two are not currently unified, and that is
+ * disclosed by the caller (`analyze_workspace`), not silently assumed away
+ * here.
+ */
+import { mkdirSync } from "node:fs";
+import { dirname } from "node:path";
+import { buildGraph, counts, createGitSource, createStoreProvider, getNode, gitHead, isGitRepository, NodeSqliteDriver, openStore, persistGraph, rebuildStaleGraph, repoOfEndpoint, repoOfTable, resolveWorkspaceApiJoins, resolveWorkspaceTableJoins, } from "@descryy/core";
+import { detectSources, loadSources } from "./registry.js";
+import { loadConfig } from "./session.js";
+import { optionalBatchLists, sourceFailureNote, sourceProvenanceNote } from "./tools/analyze.js";
+/** Repairs a workspace graph database written under an older IR schema
+ *  version, mirroring `Session.repairStaleGraph`'s own pattern — a version
+ *  bump (e.g. DEC-NEXT-endpoint-identity-repo-scoping's API_ENDPOINT/
+ *  DATABASE_TABLE/DATABASE_COLUMN identity fix) makes every id of the
+ *  affected types wrong for what this build computes, and `openStore` alone
+ *  would otherwise just throw `SchemaVersionError` here with nothing to
+ *  repair it — `indexWorkspace` is the one caller entitled to fix this,
+ *  because it is about to rebuild from source anyway (DEC-017). Earned data
+ *  (R4 observations, edge corrections, incident links) survives; only the
+ *  derived tables (nodes/edges/...) are dropped, and this call's own re-read
+ *  of every repository repopulates them. A path that does not exist yet, or
+ *  is already current, is a no-op — not an error. */
+function repairStaleWorkspaceGraph(graphDbPath) {
+    if (graphDbPath === ":memory:")
+        return { rebuilt: false };
+    const driver = new NodeSqliteDriver();
+    try {
+        driver.open(graphDbPath);
+        return rebuildStaleGraph(driver);
+    }
+    catch {
+        // Missing directory, corrupt file, or a store that doesn't exist yet —
+        // not this function's job. `openStore` right after hits the same case
+        // via its own disclosed error handling.
+        return { rebuilt: false };
+    }
+    finally {
+        driver.close();
+    }
+}
+/** The declared identity disagreeing with the repository's own config is disclosed, never silently picked one way. */
+function repoIdentityNote(declared, actual) {
+    if (declared === actual)
+        return undefined;
+    return (`The workspace declared this repository's identity as "${declared}" (from link_workspace), but its ` +
+        `own .descry/config.json now says "${actual}". The config's own value was used — that is what its ` +
+        `adapters actually hash repo-scoped node ids under — so update the workspace declaration if "${declared}" ` +
+        "was the intended identity.");
+}
+/** Reads one repository's configured sources and git history into batches. Writes nothing — see this module's own header for why every repository is read before anything is merged or persisted. */
+async function readOneRepo(input, workspaceId, includeHistory, maxCommits, report, signal) {
+    const notes = [];
+    const empty = {
+        repo: input.repo,
+        repoPath: input.repoPath,
+        commitSha: null,
+        batches: [],
+        sources: [],
+        sourcesFailed: [],
+        sourcesSkipped: [],
+        notes,
+        reachedResolution: 0,
+    };
+    if (!(await isGitRepository(input.repoPath))) {
+        notes.push(`${input.repoPath} is not a git repository. Every node is stamped with the commit it was read at, ` +
+            "so there is nothing honest to record for it — this repository was not indexed.");
+        return empty;
+    }
+    const config = await loadConfig(input.repoPath).catch((error) => {
+        notes.push(`${input.repoPath}'s .descry/config.json could not be read (${error instanceof Error ? error.message : String(error)}) — this repository was not indexed.`);
+        return null;
+    });
+    if (config === null)
+        return empty;
+    const identityNote = repoIdentityNote(input.repo, config.repo);
+    if (identityNote !== undefined)
+        notes.push(identityNote);
+    const repoLabel = config.repo;
+    const commitSha = await gitHead(input.repoPath);
+    const root = { repo: repoLabel, workspace: workspaceId, absolutePath: input.repoPath, commitSha };
+    const context = { root, prepareTimeoutMs: 300_000, signal };
+    const registry = await loadSources(config.sources, input.repoPath);
+    for (const failure of registry.failed) {
+        notes.push(`The source "${failure.spec.module}" could not be loaded (${failure.reason}). Anything it would ` +
+            "have read is not analysable — not clean.");
+    }
+    for (const entry of registry.loaded)
+        notes.push(sourceProvenanceNote(entry));
+    if (config.sources.length === 0) {
+        notes.push("No language adapters are configured for this repository, so nothing was read from source.");
+    }
+    const { applicable, skipped } = await detectSources(registry.loaded, root);
+    for (const entry of skipped) {
+        notes.push(`${entry.source.source.id} did not run: it ${entry.reason}.`);
+    }
+    const batches = [];
+    const perSource = [];
+    const codeResolutions = [];
+    const total = applicable.length + (includeHistory ? 1 : 0);
+    let done = 0;
+    for (const entry of applicable) {
+        report({ repo: repoLabel, phase: "detecting", completed: done, total });
+        const started = Date.now();
+        let batch;
+        try {
+            batch = await entry.source.emit(context);
+        }
+        catch (error) {
+            notes.push(sourceFailureNote(entry.source.id, error, "emit"));
+            await entry.adapter?.dispose();
+            done += 1;
+            continue;
+        }
+        try {
+            const { skippedFiles, unresolved } = optionalBatchLists(batch);
+            batches.push(batch);
+            perSource.push({
+                source: batch.producedBy,
+                installedVersion: entry.packageVersion,
+                files: batch.sourceFiles.length,
+                nodes: batch.nodes.length,
+                edges: batch.edges.length,
+                unresolved: unresolved.length,
+                skippedFiles: skippedFiles.length,
+                reachedResolution: batch.reachedResolution,
+                ms: Date.now() - started,
+            });
+            const ceiling = entry.adapter?.capabilities().maxResolution;
+            if (ceiling !== undefined)
+                codeResolutions.push(batch.reachedResolution);
+            if (ceiling !== undefined && batch.reachedResolution < ceiling) {
+                notes.push(`${entry.source.id} reached R${batch.reachedResolution} where it is capable of R${ceiling}.`);
+            }
+        }
+        catch (error) {
+            notes.push(sourceFailureNote(entry.source.id, error, "engine"));
+        }
+        finally {
+            await entry.adapter?.dispose();
+            done += 1;
+        }
+    }
+    if (includeHistory) {
+        report({ repo: repoLabel, phase: "history", completed: done, total });
+        const historyStarted = Date.now();
+        try {
+            const history = await createGitSource({
+                repo: repoLabel,
+                cwd: input.repoPath,
+                ...(typeof maxCommits === "number" ? { maxCommits } : {}),
+            }).emit(context);
+            batches.push(history);
+            perSource.push({
+                source: history.producedBy,
+                installedVersion: null,
+                files: history.sourceFiles.length,
+                nodes: history.nodes.length,
+                edges: history.edges.length,
+                unresolved: history.unresolved.length,
+                skippedFiles: history.skippedFiles.length,
+                reachedResolution: history.reachedResolution,
+                ms: Date.now() - historyStarted,
+            });
+        }
+        catch (error) {
+            notes.push(`Git history was not read (${error instanceof Error ? error.message : String(error)}), so ` +
+                "co-change coupling is absent for this repository.");
+        }
+        done += 1;
+    }
+    report({ repo: repoLabel, phase: "done", completed: total, total });
+    return {
+        repo: repoLabel,
+        repoPath: input.repoPath,
+        commitSha,
+        batches,
+        sources: perSource,
+        sourcesFailed: registry.failed.map((f) => ({ module: f.spec.module, reason: f.reason })),
+        sourcesSkipped: skipped.map((s) => ({ source: s.source.source.id, reason: s.reason })),
+        notes,
+        reachedResolution: codeResolutions.length === 0 ? 0 : Math.min(...codeResolutions),
+    };
+}
+/**
+ * Index every repository in `options.repos` into one shared graph store at
+ * `options.graphDbPath`, creating it if absent.
+ *
+ * One repository failing to read — not a git repository, an unreadable
+ * config, every adapter refusing it — costs only its own rows; the others
+ * are still read, merged and persisted, the same "one adapter's failure
+ * costs its own rows and nothing else" posture `analyze.ts` already takes one
+ * level down.
+ */
+export async function indexWorkspace(options) {
+    const report = options.onProgress ?? (() => { });
+    const includeHistory = options.includeHistory ?? true;
+    const signal = options.signal ?? new AbortController().signal;
+    const reads = [];
+    for (const repoInput of options.repos) {
+        reads.push(await readOneRepo(repoInput, options.workspaceId, includeHistory, options.maxCommits, report, signal));
+    }
+    if (options.graphDbPath !== ":memory:") {
+        mkdirSync(dirname(options.graphDbPath), { recursive: true });
+    }
+    // A shared workspace graph already on disk under an older IR schema version
+    // (e.g. written before DEC-NEXT-endpoint-identity-repo-scoping) would
+    // otherwise make the plain `openStore` below throw `SchemaVersionError` with
+    // nothing here to repair it — see `repairStaleWorkspaceGraph`'s own doc.
+    const { rebuilt } = repairStaleWorkspaceGraph(options.graphDbPath);
+    const store = openStore(options.graphDbPath);
+    try {
+        const allBatches = reads.flatMap((r) => r.batches);
+        report({ repo: options.workspaceId, phase: "merging", completed: reads.length, total: reads.length });
+        const built = buildGraph(allBatches, { nodeExists: (id) => getNode(store.driver, id) != null });
+        // Gap 10: the frontend-to-backend API_ENDPOINT join no longer happens
+        // inside `buildGraph` (API_ENDPOINT is repo-scoped now) — resolve it here,
+        // once, over the whole merged workspace graph, before persisting.
+        const repoOf = repoOfEndpoint(allBatches);
+        const apiJoins = resolveWorkspaceApiJoins(built.nodes, built.edges, repoOf);
+        // Gap 10's table half: DATABASE_TABLE/DATABASE_COLUMN are repo-scoped now
+        // too (same ruling), and the join runs the same way — once, over the
+        // whole merged workspace graph, chained after the API_ENDPOINT join so
+        // both rewrites land in the edges persisted below.
+        const repoOfTables = repoOfTable(allBatches);
+        const tableJoins = resolveWorkspaceTableJoins(built.nodes, apiJoins.edges, repoOfTables);
+        const builtWithJoins = { ...built, edges: tableJoins.edges };
+        report({ repo: options.workspaceId, phase: "writing", completed: reads.length, total: reads.length });
+        const persisted = persistGraph(store.driver, allBatches, builtWithJoins);
+        // `persistGraph` writes one `WriteResult` per batch, in the same order as
+        // `allBatches` — zipped back against each batch's own `repo` field so a
+        // per-repository written total can be reported without a second store
+        // pass, matching the ordering guarantee `persist.ts`'s own doc states.
+        const writtenByRepo = new Map();
+        allBatches.forEach((batch, index) => {
+            const write = persisted.writes[index];
+            const bucket = writtenByRepo.get(batch.repo) ?? { nodes: 0, edges: 0, unresolved: 0, evictedFiles: new Set() };
+            bucket.nodes += write.nodesWritten;
+            bucket.edges += write.edgesWritten;
+            bucket.unresolved += write.unresolvedWritten;
+            for (const file of write.evictedFiles)
+                bucket.evictedFiles.add(file);
+            writtenByRepo.set(batch.repo, bucket);
+        });
+        const notes = [];
+        if (rebuilt) {
+            notes.push("This workspace's shared graph was written under an older IR schema version. Its derived " +
+                "rows (nodes, edges, ...) have been dropped and are rebuilt by this run; earned data (R4 " +
+                "observations, edge corrections, incident links) survives untouched (DEC-017).");
+        }
+        for (const join of apiJoins.resolved) {
+            if (join.via === "caller-hint") {
+                notes.push(`${join.key.method} ${join.key.pathTemplate} is served by more than one repository in this ` +
+                    "workspace; resolved to one of them using the caller's own reported origin.");
+            }
+        }
+        for (const ambiguity of apiJoins.ambiguous) {
+            notes.push(`API_ENDPOINT join: ${ambiguity.detail}`);
+        }
+        for (const ambiguity of tableJoins.ambiguous) {
+            notes.push(`DATABASE_TABLE join: ${ambiguity.detail}`);
+        }
+        for (const collision of built.collisions) {
+            notes.push(`Two different things claimed node id ${collision.nodeId}: a ${collision.kept.type} from ` +
+                `${collision.kept.producedBy} and a ${collision.discarded.type} from ` +
+                `${collision.discarded.producedBy}. The second was discarded (DEC-024).`);
+        }
+        if (built.droppedEdges > 0) {
+            notes.push(`${built.droppedEdges} edge(s) were dropped because an endpoint did not resolve to a real node.`);
+        }
+        if (persisted.evictedFiles.length > 0) {
+            notes.push(`${persisted.evictedFiles.length} file(s) covered by a previous run were not re-supplied by this ` +
+                "one; their rows have been removed from the shared store.");
+        }
+        for (const warning of built.warnings)
+            notes.push(warning.detail);
+        const repos = reads.map((r) => {
+            const bucket = writtenByRepo.get(r.repo);
+            return {
+                repo: r.repo,
+                repoPath: r.repoPath,
+                commitSha: r.commitSha,
+                sources: r.sources,
+                sourcesFailed: r.sourcesFailed,
+                sourcesSkipped: r.sourcesSkipped,
+                notes: r.notes,
+                written: {
+                    nodes: bucket?.nodes ?? 0,
+                    edges: bucket?.edges ?? 0,
+                    unresolved: bucket?.unresolved ?? 0,
+                    evictedFiles: bucket?.evictedFiles.size ?? 0,
+                },
+                reachedResolution: r.reachedResolution,
+            };
+        });
+        const codeResolutions = repos.map((r) => r.reachedResolution).filter((r) => r > 0);
+        const resolutionFloor = (codeResolutions.length === 0 ? 0 : Math.min(...codeResolutions));
+        const stamp = { ...createStoreProvider(store.driver).baseStamp(), resolutionFloor };
+        return {
+            workspaceId: options.workspaceId,
+            graphDbPath: options.graphDbPath,
+            repos,
+            stored: counts(store.driver),
+            stamp,
+            merge: {
+                mergedNodes: built.mergedNodes,
+                mergedEdges: built.mergedEdges,
+                collisions: built.collisions.length,
+                droppedEdges: built.droppedEdges,
+                rejections: built.rejections.length,
+            },
+            crossRepoJoins: built.crossRepoJoins,
+            apiJoins: {
+                resolved: apiJoins.resolved,
+                ambiguous: apiJoins.ambiguous,
+                unmatched: apiJoins.unmatched,
+                unkeyed: apiJoins.unkeyed,
+            },
+            tableJoins: {
+                resolved: tableJoins.resolved,
+                ambiguous: tableJoins.ambiguous,
+                unkeyed: tableJoins.unkeyed,
+                singletons: tableJoins.singletons,
+            },
+            notes,
+        };
+    }
+    finally {
+        store.close();
+    }
+}
+//# sourceMappingURL=workspace-index.js.map

package/dist/workspace-index.js.map

@@ -0,0 +1 @@
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package/package.json

@@ -1,6 +1,6 @@
 {
   "name": "@descryy/mcp",
-  "version": "0.11.5",
+  "version": "0.11.7",
   "type": "module",
   "description": "Descry's MCP server: the agent-facing front door over the query layer. The stdio transport is JSON-RPC 2.0 by hand rather than seventeen packages of HTTP and OAuth. Twenty-one tools; most read the graph and nothing else. The @descryy dependencies are here for the three that do more: observe_runtime boots or attaches to a real application, observe_tests runs the project's own test suite, and the browser tools drive a real browser — each writing what it witnessed into the graph as R4 facts. @descryy/runtime-browser is declared below like the others. It is still imported by specifier at call time rather than statically — not because it is unpublished (it is not) but because that indirection is an injection seam real tests use to drive the settle logic against a fake module with no real browser involved; see playwright-driver.ts. A missing package, a missing Chromium binary, or an import failure each still returns a named, remediable refusal rather than a crash or an empty result.",
   "license": "MIT",
@@ -41,15 +41,15 @@
     "@descryy/runtime-backend-observation": "0.3.6",
     "@descryy/runtime-browser": "0.4.8",
     "@descryy/runtime-contracts": "0.3.3",
-    "@descryy/runtime-controller": "0.3.8",
+    "@descryy/runtime-controller": "0.3.9",
     "@descryy/runtime-database-observation": "0.4.8",
     "@descryy/runtime-environment-profile": "0.4.5",
-    "@descryy/runtime-evidence-correlation": "0.4.9",
+    "@descryy/runtime-evidence-correlation": "0.4.10",
     "@descryy/runtime-evidence-store": "0.4.2",
     "@descryy/runtime-graph-correlator": "0.4.8",
     "@descryy/runtime-identity-grounding": "0.4.4",
-    "@descryy/runtime-orchestrator": "0.4.9",
-    "@descryy/runtime-test-runner": "0.4.9"
+    "@descryy/runtime-orchestrator": "0.4.10",
+    "@descryy/runtime-test-runner": "0.4.10"
   },
   "optionalDependencies": {
     "@descryy/runtime-adapter-typescript": "0.3.7",