ctxr-cli 0.7.0 → 0.9.0

package/dist/commands/ingest.js

@@ -1,10 +1,13 @@
+import { existsSync } from 'node:fs';
+import { mkdir, rename, unlink } from 'node:fs/promises';
 import path from 'node:path';
 import { buildCatalog } from '../core/catalog/build.js';
-import { contentHashOfBody } from '../core/content/canonicalize.js';
-import { AlreadyIngestedError, NoteNotFoundError } from '../core/errors.js';
+import { AlreadyIngestedError, CaptureDestinationExistsError, NoteNotFoundError } from '../core/errors.js';
 import { ExitCode } from '../core/exit-codes.js';
+import { isUnderPrefix } from '../core/fs/prefix.js';
 import { writeFileAtomic } from '../core/fs/atomic.js';
-import { hasSourceIdentity, INGESTED_FIELD, SOURCE_HASH_FIELD, SOURCE_ID_FIELD, SOURCE_TYPE_FIELD } from '../core/ingest/identity.js';
+import { hashOfCapture } from '../core/ingest/capture-hash.js';
+import { CAPTURE_FILE_FIELD, hasAssignedIdentity, INGESTED_FIELD, SOURCE_HASH_FIELD, SOURCE_ID_FIELD, SOURCE_TYPE_FIELD, SOURCES_FIELD, } from '../core/ingest/identity.js';
 import { parseNote } from '../core/notes/parse.js';
 import { renderNoteText } from '../core/notes/render.js';
 export const requires = { store: 'required' };
@@ -12,49 +15,108 @@ function toStoreRelativePath(env, store, givenPath) {
     const absolute = path.isAbsolute(givenPath) ? givenPath : path.resolve(env.cwd, givenPath);
     return path.relative(store.root, absolute).split(path.sep).join('/');
 }
+/** The capture tier's directory for a given moment: one per month of ingest, created lazily. */
+function ledgerDirectoryFor(captureRoot, when) {
+    const month = `${when.getUTCFullYear()}${String(when.getUTCMonth() + 1).padStart(2, '0')}`;
+    return `${captureRoot.replace(/\/+$/, '')}/${month}`;
+}
 /**
- * context-ingest spec: identity fields are assigned once, here, and never
- * recomputed from the live body afterward — the hash computed in this
- * function IS the frozen source-hash for this note's lifetime. Rebuilding
- * the catalog before returning (rather than documenting it as a required
- * next step) is this codebase's choice for task 6.6: a successful write
- * leaves its own derived-artifact consequence consistent immediately,
- * matching every other writer in the system (init's .gitignore/AGENTS.md
- * reconciliation, catalog build itself).
+ * The capture's path after ingest. A capture waiting in the inbox moves into
+ * the month's directory; one already retained (a re-stamp, or a capture an
+ * operator filed by hand) stays exactly where it is.
  */
-export async function execute(env, store, flags) {
-    const relativePath = toStoreRelativePath(env, store, flags.path);
-    const absolutePath = path.join(store.root, relativePath);
-    let note;
+function retainedPathFor(config, capturePath, when) {
+    if (!isUnderPrefix(capturePath, config.ingest.inbox_path))
+        return capturePath;
+    return `${ledgerDirectoryFor(config.ingest.capture_root, when)}/${path.posix.basename(capturePath)}`;
+}
+async function readOrThrow(store, relativePath) {
     try {
-        note = await parseNote(absolutePath, relativePath);
+        return await parseNote(path.join(store.root, relativePath), relativePath);
     }
     catch (err) {
         if (err.code === 'ENOENT')
             throw new NoteNotFoundError(relativePath);
         throw err;
     }
-    if (hasSourceIdentity(note)) {
-        throw new AlreadyIngestedError(relativePath);
+}
+/** Appends a capture path to a note's source list without disturbing one already cited. */
+function citedSources(frontmatter, capturePath) {
+    const existing = frontmatter?.[SOURCES_FIELD];
+    const cited = Array.isArray(existing) ? existing.filter((entry) => typeof entry === 'string') : [];
+    return cited.includes(capturePath) ? cited : [...cited, capturePath];
+}
+/**
+ * context-ingest spec: identity is assigned once, here, onto the CAPTURE —
+ * the file that arrived — and never recomputed from it afterwards. The
+ * destination note is the synthesis, free to be rewritten without touching
+ * the hash, and it may already exist: expanding, merging and restructuring
+ * record provenance on the same footing as creating, which is the whole point
+ * of retaining the capture rather than consuming it.
+ *
+ * Order matters for resumability. The capture is written to its retained
+ * location before the old one is removed, and the note is cited last, so an
+ * interruption leaves either an un-ingested capture or a retained one that a
+ * re-run can cite — never a note citing a path that does not exist.
+ *
+ * Rebuilding the catalog before returning (rather than documenting it as a
+ * required next step) is this codebase's choice: a successful write leaves
+ * its own derived-artifact consequence consistent immediately, matching every
+ * other writer in the system. The retained capture takes no catalog entry —
+ * the capture root is a retrieval exclusion, so it is not a note.
+ */
+export async function execute(env, store, flags) {
+    const capturePath = toStoreRelativePath(env, store, flags.path);
+    const notePath = toStoreRelativePath(env, store, flags.into);
+    const capture = await readOrThrow(store, capturePath);
+    if (hasAssignedIdentity(capture)) {
+        throw new AlreadyIngestedError(capturePath);
     }
-    const sourceHash = contentHashOfBody(note.body);
+    const note = await readOrThrow(store, notePath);
+    const { hash: sourceHash } = await hashOfCapture(store.root, capturePath);
     const ingested = env.now().toISOString();
-    const frontmatter = {
-        ...note.frontmatter,
+    const retainedPath = retainedPathFor(store.config, capturePath, env.now());
+    if (retainedPath !== capturePath && existsSync(path.join(store.root, retainedPath))) {
+        throw new CaptureDestinationExistsError(retainedPath);
+    }
+    const stampedFrontmatter = {
+        ...capture.frontmatter,
         [SOURCE_TYPE_FIELD]: flags.sourceType,
         [SOURCE_ID_FIELD]: flags.sourceId,
         [SOURCE_HASH_FIELD]: sourceHash,
         [INGESTED_FIELD]: ingested,
     };
-    await writeFileAtomic(absolutePath, renderNoteText(frontmatter, note.body));
+    await mkdir(path.dirname(path.join(store.root, retainedPath)), { recursive: true });
+    await writeFileAtomic(path.join(store.root, retainedPath), renderNoteText(stampedFrontmatter, capture.body));
+    if (retainedPath !== capturePath) {
+        await unlink(path.join(store.root, capturePath));
+        await moveSidecarSubject(store, capture.frontmatter, capturePath, retainedPath);
+    }
+    const noteFrontmatter = { ...note.frontmatter, [SOURCES_FIELD]: citedSources(note.frontmatter, retainedPath) };
+    await writeFileAtomic(path.join(store.root, notePath), renderNoteText(noteFrontmatter, note.body));
     await buildCatalog(store);
     return {
         exitCode: ExitCode.Ok,
-        data: { path: relativePath, sourceType: flags.sourceType, sourceId: flags.sourceId, sourceHash, ingested },
+        data: { capture: retainedPath, note: notePath, sourceType: flags.sourceType, sourceId: flags.sourceId, sourceHash, ingested },
         findings: [],
-        humanSummary: `Ingested "${relativePath}" (source: ${flags.sourceType}/${flags.sourceId}).`,
+        humanSummary: `Retained "${retainedPath}" (source: ${flags.sourceType}/${flags.sourceId}) and cited it from "${notePath}".`,
         storeRoot: store.root,
         schemaVersion: store.config.schema_version,
     };
 }
+/**
+ * A sidecar names a file beside it, so moving the sidecar without its subject
+ * would leave the name dangling and the hash unverifiable. The subject moves
+ * with it, into the same directory, keeping the sidecar's relative name valid.
+ */
+async function moveSidecarSubject(store, frontmatter, fromPath, toPath) {
+    const captureFile = frontmatter?.[CAPTURE_FILE_FIELD];
+    if (typeof captureFile !== 'string' || captureFile === '')
+        return;
+    const from = path.join(store.root, path.posix.dirname(fromPath), captureFile);
+    const to = path.join(store.root, path.posix.dirname(toPath), captureFile);
+    if (!existsSync(from) || existsSync(to))
+        return;
+    await rename(from, to);
+}
 //# sourceMappingURL=ingest.js.map

package/dist/commands/ingest.js.map

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package/dist/commands/init.d.ts.map

@@ -1 +1 @@
-{"version":3,"file":"init.d.ts","sourceRoot":"","sources":["../../src/commands/init.ts"],"names":[],"mappings":"AAKA,OAAO,KAAK,EAAE,cAAc,EAAE,eAAe,EAAE,MAAM,oBAAoB,CAAC;AAyB1E,OAAO,EAKL,KAAK,mBAAmB,EACzB,MAAM,qBAAqB,CAAC;AAe7B,OAAO,EAAiB,KAAK,MAAM,EAAE,MAAM,gBAAgB,CAAC;AAkB5D,eAAO,MAAM,QAAQ,EAAE,eAAqC,CAAC;AAE7D,MAAM,WAAW,SAAS;IACxB,IAAI,CAAC,EAAE,MAAM,CAAC;IACd,OAAO,CAAC,EAAE,MAAM,CAAC;IACjB,QAAQ,CAAC,EAAE,MAAM,CAAC;IAClB,2HAA2H;IAC3H,OAAO,CAAC,EAAE,MAAM,CAAC;CAClB;AAED,MAAM,WAAW,QAAQ;IACvB,IAAI,EAAE,MAAM,CAAC;IACb,mBAAmB,EAAE,OAAO,CAAC;IAC7B,OAAO,EAAE,MAAM,EAAE,CAAC;IAClB,SAAS,EAAE,MAAM,EAAE,CAAC;IACpB,GAAG,EAAE;QAAE,kBAAkB,EAAE,OAAO,CAAC;QAAC,MAAM,EAAE,MAAM,GAAG,IAAI,CAAC;QAAC,cAAc,EAAE,MAAM,GAAG,IAAI,CAAA;KAAE,CAAC;IAC3F,wFAAwF;IACxF,QAAQ,EAAE;QAAE,OAAO,EAAE,MAAM,GAAG,IAAI,CAAC;QAAC,MAAM,EAAE,mBAAmB,EAAE,CAAA;KAAE,CAAC;IACpE,cAAc,EAAE,MAAM,CAAC;CACxB;AA8TD,wBAAsB,OAAO,CAAC,GAAG,EAAE,MAAM,EAAE,KAAK,EAAE,SAAS,GAAG,OAAO,CAAC,cAAc,CAAC,QAAQ,CAAC,CAAC,CAY9F"}
+{"version":3,"file":"init.d.ts","sourceRoot":"","sources":["../../src/commands/init.ts"],"names":[],"mappings":"AAKA,OAAO,KAAK,EAAE,cAAc,EAAE,eAAe,EAAE,MAAM,oBAAoB,CAAC;AA4B1E,OAAO,EAKL,KAAK,mBAAmB,EACzB,MAAM,qBAAqB,CAAC;AAe7B,OAAO,EAAiB,KAAK,MAAM,EAAE,MAAM,gBAAgB,CAAC;AAkB5D,eAAO,MAAM,QAAQ,EAAE,eAAqC,CAAC;AAE7D,MAAM,WAAW,SAAS;IACxB,IAAI,CAAC,EAAE,MAAM,CAAC;IACd,OAAO,CAAC,EAAE,MAAM,CAAC;IACjB,QAAQ,CAAC,EAAE,MAAM,CAAC;IAClB,2HAA2H;IAC3H,OAAO,CAAC,EAAE,MAAM,CAAC;CAClB;AAED,MAAM,WAAW,QAAQ;IACvB,IAAI,EAAE,MAAM,CAAC;IACb,mBAAmB,EAAE,OAAO,CAAC;IAC7B,OAAO,EAAE,MAAM,EAAE,CAAC;IAClB,SAAS,EAAE,MAAM,EAAE,CAAC;IACpB,GAAG,EAAE;QAAE,kBAAkB,EAAE,OAAO,CAAC;QAAC,MAAM,EAAE,MAAM,GAAG,IAAI,CAAC;QAAC,cAAc,EAAE,MAAM,GAAG,IAAI,CAAA;KAAE,CAAC;IAC3F,wFAAwF;IACxF,QAAQ,EAAE;QAAE,OAAO,EAAE,MAAM,GAAG,IAAI,CAAC;QAAC,MAAM,EAAE,mBAAmB,EAAE,CAAA;KAAE,CAAC;IACpE,cAAc,EAAE,MAAM,CAAC;CACxB;AAgVD,wBAAsB,OAAO,CAAC,GAAG,EAAE,MAAM,EAAE,KAAK,EAAE,SAAS,GAAG,OAAO,CAAC,cAAc,CAAC,QAAQ,CAAC,CAAC,CAY9F"}

package/dist/commands/init.js

@@ -3,7 +3,7 @@ import { mkdir, readFile } from 'node:fs/promises';
 import path from 'node:path';
 import { parse as parseYaml } from 'yaml';
 import { z } from 'zod';
-import { DEFAULT_ADAPTERS, DEFAULT_ARCHIVE_DESTINATION, DEFAULT_ROLLUP_STALE_DAYS, DEFAULT_CATALOG_PATH, DEFAULT_CATALOG_SECTION_MAX_BYTES, DEFAULT_PUBLISH_PATH, DEFAULT_VENDORED_SKILLS, DEFAULT_HOUSE_CONVENTIONS_FILE_NAME, DEFAULT_GUIDANCE_PATH, DEFAULT_DERIVED_PATHS, DEFAULT_DIFF_SIZE_CEILING_LINES, DEFAULT_EXCLUDE_PATHS, DEFAULT_INBOX_PATH, DEFAULT_TRACKING_PARAMS, DEFAULT_MISSION_PATH, DEFAULT_SKILLS_PATH, DEFAULT_RELATIONS, DEFAULT_GRAPH_SETTINGS, DEFAULT_SESSION_BRANCH_PREFIX, DEFAULT_WORKTREES_PATH, } from '../config/defaults.js';
+import { DEFAULT_ADAPTERS, DEFAULT_ARCHIVE_DESTINATION, DEFAULT_GATHER_MAX_NOTES, DEFAULT_ROLLUP_STALE_DAYS, DEFAULT_CATALOG_PATH, DEFAULT_CATALOG_SECTION_MAX_BYTES, DEFAULT_CONVENTION_MAX_BYTES, DEFAULT_PUBLISH_PATH, DEFAULT_VENDORED_SKILLS, DEFAULT_HOUSE_CONVENTIONS_FILE_NAME, DEFAULT_GUIDANCE_PATH, DEFAULT_DERIVED_PATHS, DEFAULT_DIFF_SIZE_CEILING_LINES, DEFAULT_CAPTURE_ROOT, DEFAULT_EXCLUDE_PATHS, DEFAULT_INBOX_PATH, DEFAULT_TRACKING_PARAMS, DEFAULT_MISSION_PATH, DEFAULT_SKILLS_PATH, DEFAULT_RELATIONS, DEFAULT_GRAPH_SETTINGS, DEFAULT_SESSION_BRANCH_PREFIX, DEFAULT_WORKTREES_PATH, } from '../config/defaults.js';
 import { configPathFor, readConfig } from '../config/load.js';
 import { renderStoreConfig } from '../config/render.js';
 import { SUPPORTED_SCHEMA_VERSION, TaxonomyLayerSchema, } from '../config/schema.js';
@@ -190,20 +190,29 @@ async function runInitCore(env, flags) {
         ...DEFAULT_ADAPTERS.filter((a) => a.kind !== 'harness-generation'),
         ...harnessIds.map((id) => ({ id, kind: 'harness-generation' })),
     ];
+    const archiveDestination = taxonomy.archiveDestination ?? DEFAULT_ARCHIVE_DESTINATION;
     const config = {
         schema_version: SUPPORTED_SCHEMA_VERSION,
         taxonomy: { profile: taxonomy.profileId, layers: taxonomy.layers },
         derived: { paths: [...DEFAULT_DERIVED_PATHS] },
-        retrieval: { exclude_paths: [...DEFAULT_EXCLUDE_PATHS], relations: [...DEFAULT_RELATIONS], graph: { ...DEFAULT_GRAPH_SETTINGS, orphan_exempt_clusters: [] } },
+        retrieval: {
+            exclude_paths: [...DEFAULT_EXCLUDE_PATHS],
+            // Seeded from the taxonomy's own archive destination, never a literal:
+            // archived material stays retrievable and sorts last (D11).
+            demote_paths: [archiveDestination],
+            gather_max_notes: DEFAULT_GATHER_MAX_NOTES,
+            relations: [...DEFAULT_RELATIONS],
+            graph: { ...DEFAULT_GRAPH_SETTINGS, orphan_exempt_clusters: [] },
+        },
         git: { default_branch: defaultBranch },
         session: { branch_prefix: DEFAULT_SESSION_BRANCH_PREFIX, worktrees_path: DEFAULT_WORKTREES_PATH },
         write_lifecycle: { diff_size_ceiling_lines: DEFAULT_DIFF_SIZE_CEILING_LINES, writable_paths: [] },
         catalog: { path: DEFAULT_CATALOG_PATH, section_max_bytes: DEFAULT_CATALOG_SECTION_MAX_BYTES },
         publish: { path: DEFAULT_PUBLISH_PATH },
         skills: { vendored: [...DEFAULT_VENDORED_SKILLS] },
-        ingest: { inbox_path: DEFAULT_INBOX_PATH, tracking_params: [...DEFAULT_TRACKING_PARAMS] },
-        organize: { archive_destination: taxonomy.archiveDestination ?? DEFAULT_ARCHIVE_DESTINATION, rollup_stale_days: DEFAULT_ROLLUP_STALE_DAYS, mission_path: DEFAULT_MISSION_PATH },
-        harness: { skills_path: DEFAULT_SKILLS_PATH, guidance_path: DEFAULT_GUIDANCE_PATH },
+        ingest: { inbox_path: DEFAULT_INBOX_PATH, capture_root: DEFAULT_CAPTURE_ROOT, tracking_params: [...DEFAULT_TRACKING_PARAMS] },
+        organize: { archive_destination: archiveDestination, rollup_stale_days: DEFAULT_ROLLUP_STALE_DAYS, mission_path: DEFAULT_MISSION_PATH },
+        harness: { skills_path: DEFAULT_SKILLS_PATH, guidance_path: DEFAULT_GUIDANCE_PATH, convention_max_bytes: DEFAULT_CONVENTION_MAX_BYTES },
         adapters: resolvedAdapters,
     };
     // Round-trips through the schema internally; throws before any byte is written if it doesn't.
@@ -245,6 +254,13 @@ async function runInitCore(env, flags) {
         await writeFileAtomic(gitkeepPath, '');
         layerGitkeeps.push(path.join(layer.path, '.gitkeep'));
     }
+    // context-ingest spec: the inbox, so a fresh store has somewhere to capture
+    // into. Kept by the same .gitkeep device as a layer, and tracked like one —
+    // the capture tier is provenance, never a derived path or an ignore entry.
+    const inboxDir = path.join(root, config.ingest.inbox_path);
+    await mkdir(inboxDir, { recursive: true });
+    await writeFileAtomic(path.join(inboxDir, '.gitkeep'), '');
+    layerGitkeeps.push(path.join(config.ingest.inbox_path, '.gitkeep'));
     // Version-controlled hooks (write-lifecycle spec): generated now, staged
     // and committed below alongside the rest of the scaffold.
     const { changed: hookFiles } = await installHooks(root, defaultBranch);

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package/dist/commands/source-check.d.ts.map

@@ -1 +1 @@
-{"version":3,"file":"source-check.d.ts","sourceRoot":"","sources":["../../src/commands/source-check.ts"],"names":[],"mappings":"AAEA,OAAO,KAAK,EAAE,cAAc,EAAE,eAAe,EAAE,MAAM,oBAAoB,CAAC;AAE1E,OAAO,KAAK,EAAE,MAAM,EAAE,MAAM,gBAAgB,CAAC;AAI7C,OAAO,EAAuB,KAAK,iBAAiB,EAAE,MAAM,yBAAyB,CAAC;AAEtF,OAAO,KAAK,EAAE,KAAK,EAAE,MAAM,kBAAkB,CAAC;AAE9C,eAAO,MAAM,QAAQ,EAAE,eAAuC,CAAC;AAE/D,MAAM,WAAW,gBAAgB;IAC/B,IAAI,EAAE,MAAM,CAAC;IACb,QAAQ,EAAE,MAAM,CAAC;CAClB;AAED,MAAM,MAAM,eAAe,GAAG,iBAAiB,GAAG;IAAE,IAAI,EAAE,MAAM,CAAA;CAAE,CAAC;AAOnE;;;;;;GAMG;AACH,wBAAsB,OAAO,CAC3B,GAAG,EAAE,MAAM,EACX,KAAK,EAAE,KAAK,EACZ,KAAK,EAAE,gBAAgB,GACtB,OAAO,CAAC,cAAc,CAAC,eAAe,CAAC,CAAC,CAoC1C"}
+{"version":3,"file":"source-check.d.ts","sourceRoot":"","sources":["../../src/commands/source-check.ts"],"names":[],"mappings":"AACA,OAAO,KAAK,EAAE,cAAc,EAAE,eAAe,EAAE,MAAM,oBAAoB,CAAC;AAE1E,OAAO,KAAK,EAAE,MAAM,EAAE,MAAM,gBAAgB,CAAC;AAI7C,OAAO,EAA4C,KAAK,iBAAiB,EAAE,MAAM,yBAAyB,CAAC;AAE3G,OAAO,KAAK,EAAE,KAAK,EAAE,MAAM,kBAAkB,CAAC;AAE9C,eAAO,MAAM,QAAQ,EAAE,eAAuC,CAAC;AAE/D,MAAM,WAAW,gBAAgB;IAC/B,IAAI,EAAE,MAAM,CAAC;IACb,QAAQ,EAAE,MAAM,CAAC;CAClB;AAED,MAAM,MAAM,eAAe,GAAG,iBAAiB,GAAG;IAAE,IAAI,EAAE,MAAM,CAAA;CAAE,CAAC;AA4BnE;;;;;;GAMG;AACH,wBAAsB,OAAO,CAC3B,GAAG,EAAE,MAAM,EACX,KAAK,EAAE,KAAK,EACZ,KAAK,EAAE,gBAAgB,GACtB,OAAO,CAAC,cAAc,CAAC,eAAe,CAAC,CAAC,CAkC1C"}

package/dist/commands/source-check.js

@@ -1,15 +1,35 @@
-import { readFile } from 'node:fs/promises';
 import path from 'node:path';
-import { contentHash } from '../core/content/canonicalize.js';
+import { hashOfCapture } from '../core/ingest/capture-hash.js';
 import { NoteNotFoundError } from '../core/errors.js';
 import { ExitCode } from '../core/exit-codes.js';
 import { evaluateSourceCheck } from '../core/ingest/model.js';
-import { listNotes } from '../core/notes/list.js';
+import { listCaptures, listNotes } from '../core/notes/list.js';
 export const requires = { store: 'required' };
 function toStoreRelativePath(env, store, givenPath) {
     const absolute = path.isAbsolute(givenPath) ? givenPath : path.resolve(env.cwd, givenPath);
     return path.relative(store.root, absolute).split(path.sep).join('/');
 }
+/**
+ * retain-captures-as-provenance: the index is the union of the capture tier
+ * and the notes still carrying identity from before it existed. `listNotes`
+ * alone would return nothing at all, since the capture root is a declared
+ * retrieval exclusion — the candidate itself is read straight off disk, so
+ * only the comparison set is affected.
+ */
+async function identityRecords(store) {
+    const [captures, notes] = await Promise.all([
+        listCaptures(store.root, store.config),
+        listNotes(store.root, store.config),
+    ]);
+    // One file is one record. A store that has not (yet) excluded its capture
+    // root would otherwise have every capture enumerated twice, and two records
+    // sharing a source-id is exactly the `multiple_matches` refusal — a config
+    // gap must not read as an ambiguity in the material.
+    const byPath = new Map();
+    for (const record of [...captures, ...notes])
+        byPath.set(record.path, record);
+    return [...byPath.values()];
+}
 /**
  * context-ingest spec: evaluate, in order, source-id match then content-
  * hash match, never proceeding past a stage with more than one match. Only
@@ -19,19 +39,17 @@ function toStoreRelativePath(env, store, givenPath) {
  */
 export async function execute(env, store, flags) {
     const relativePath = toStoreRelativePath(env, store, flags.path);
-    const absolutePath = path.join(store.root, relativePath);
-    let raw;
+    let hash;
     try {
-        raw = await readFile(absolutePath, 'utf8');
+        ({ hash } = await hashOfCapture(store.root, relativePath));
     }
     catch (err) {
         if (err.code === 'ENOENT')
             throw new NoteNotFoundError(relativePath);
         throw err;
     }
-    const hash = contentHash(raw, relativePath);
-    const notes = await listNotes(store.root, store.config);
-    const result = evaluateSourceCheck(notes, hash, flags.sourceId, store.config.ingest.tracking_params);
+    const records = await identityRecords(store);
+    const result = evaluateSourceCheck(records, hash, flags.sourceId, store.config.ingest.tracking_params);
     const findings = result.verdict === 'multiple_matches'
         ? [
             {

package/dist/commands/source-check.js.map

@@ -1 +1 @@
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+{"version":3,"file":"source-check.js","sourceRoot":"","sources":["../../src/commands/source-check.ts"],"names":[],"mappings":"AAAA,OAAO,IAAI,MAAM,WAAW,CAAC;AAE7B,OAAO,EAAE,aAAa,EAAE,MAAM,gCAAgC,CAAC;AAE/D,OAAO,EAAE,iBAAiB,EAAE,MAAM,mBAAmB,CAAC;AAEtD,OAAO,EAAE,QAAQ,EAAE,MAAM,uBAAuB,CAAC;AACjD,OAAO,EAAE,mBAAmB,EAA+C,MAAM,yBAAyB,CAAC;AAC3G,OAAO,EAAE,YAAY,EAAE,SAAS,EAAE,MAAM,uBAAuB,CAAC;AAGhE,MAAM,CAAC,MAAM,QAAQ,GAAoB,EAAE,KAAK,EAAE,UAAU,EAAE,CAAC;AAS/D,SAAS,mBAAmB,CAAC,GAAW,EAAE,KAAY,EAAE,SAAiB;IACvE,MAAM,QAAQ,GAAG,IAAI,CAAC,UAAU,CAAC,SAAS,CAAC,CAAC,CAAC,CAAC,SAAS,CAAC,CAAC,CAAC,IAAI,CAAC,OAAO,CAAC,GAAG,CAAC,GAAG,EAAE,SAAS,CAAC,CAAC;IAC3F,OAAO,IAAI,CAAC,QAAQ,CAAC,KAAK,CAAC,IAAI,EAAE,QAAQ,CAAC,CAAC,KAAK,CAAC,IAAI,CAAC,GAAG,CAAC,CAAC,IAAI,CAAC,GAAG,CAAC,CAAC;AACvE,CAAC;AAED;;;;;;GAMG;AACH,KAAK,UAAU,eAAe,CAAC,KAAY;IACzC,MAAM,CAAC,QAAQ,EAAE,KAAK,CAAC,GAAG,MAAM,OAAO,CAAC,GAAG,CAAC;QAC1C,YAAY,CAAC,KAAK,CAAC,IAAI,EAAE,KAAK,CAAC,MAAM,CAAC;QACtC,SAAS,CAAC,KAAK,CAAC,IAAI,EAAE,KAAK,CAAC,MAAM,CAAC;KACpC,CAAC,CAAC;IACH,0EAA0E;IAC1E,4EAA4E;IAC5E,2EAA2E;IAC3E,qDAAqD;IACrD,MAAM,MAAM,GAAG,IAAI,GAAG,EAA0B,CAAC;IACjD,KAAK,MAAM,MAAM,IAAI,CAAC,GAAG,QAAQ,EAAE,GAAG,KAAK,CAAC;QAAE,MAAM,CAAC,GAAG,CAAC,MAAM,CAAC,IAAI,EAAE,MAAM,CAAC,CAAC;IAC9E,OAAO,CAAC,GAAG,MAAM,CAAC,MAAM,EAAE,CAAC,CAAC;AAC9B,CAAC;AAED;;;;;;GAMG;AACH,MAAM,CAAC,KAAK,UAAU,OAAO,CAC3B,GAAW,EACX,KAAY,EACZ,KAAuB;IAEvB,MAAM,YAAY,GAAG,mBAAmB,CAAC,GAAG,EAAE,KAAK,EAAE,KAAK,CAAC,IAAI,CAAC,CAAC;IAEjE,IAAI,IAAY,CAAC;IACjB,IAAI,CAAC;QACH,CAAC,EAAE,IAAI,EAAE,GAAG,MAAM,aAAa,CAAC,KAAK,CAAC,IAAI,EAAE,YAAY,CAAC,CAAC,CAAC;IAC7D,CAAC;IAAC,OAAO,GAAG,EAAE,CAAC;QACb,IAAK,GAA6B,CAAC,IAAI,KAAK,QAAQ;YAAE,MAAM,IAAI,iBAAiB,CAAC,YAAY,CAAC,CAAC;QAChG,MAAM,GAAG,CAAC;IACZ,CAAC;IAED,MAAM,OAAO,GAAG,MAAM,eAAe,CAAC,KAAK,CAAC,CAAC;IAC7C,MAAM,MAAM,GAAG,mBAAmB,CAAC,OAAO,EAAE,IAAI,EAAE,KAAK,CAAC,QAAQ,EAAE,KAAK,CAAC,MAAM,CAAC,MAAM,CAAC,eAAe,CAAC,CAAC;IAEvG,MAAM,QAAQ,GACZ,MAAM,CAAC,OAAO,KAAK,kBAAkB;QACnC,CAAC,CAAC;YACE;gBACE,IAAI,EAAE,sCAAsC;gBAC5C,QAAQ,EAAE,OAAO;gBACjB,OAAO,EAAE,8CAA8C,MAAM,CAAC,KAAK,WAAW,MAAM,CAAC,OAAO,CAAC,IAAI,CAAC,IAAI,CAAC,GAAG;gBAC1G,OAAO,EAAE,EAAE,KAAK,EAAE,MAAM,CAAC,KAAK,EAAE,OAAO,EAAE,MAAM,CAAC,OAAO,EAAE;aAC1D;SACF;QACH,CAAC,CAAC,EAAE,CAAC;IAET,OAAO;QACL,QAAQ,EAAE,MAAM,CAAC,OAAO,KAAK,kBAAkB,CAAC,CAAC,CAAC,QAAQ,CAAC,WAAW,CAAC,CAAC,CAAC,QAAQ,CAAC,EAAE;QACpF,IAAI,EAAE,EAAE,IAAI,EAAE,YAAY,EAAE,GAAG,MAAM,EAAE;QACvC,QAAQ;QACR,YAAY,EAAE,GAAG,YAAY,KAAK,MAAM,CAAC,OAAO,GAAG,MAAM,CAAC,OAAO,CAAC,MAAM,GAAG,CAAC,CAAC,CAAC,CAAC,KAAK,MAAM,CAAC,OAAO,CAAC,IAAI,CAAC,IAAI,CAAC,GAAG,CAAC,CAAC,CAAC,EAAE,EAAE;QACvH,SAAS,EAAE,KAAK,CAAC,IAAI;QACrB,aAAa,EAAE,KAAK,CAAC,MAAM,CAAC,cAAc;KAC3C,CAAC;AACJ,CAAC"}

package/dist/commands/source-stamp.d.ts

@@ -14,11 +14,12 @@ export interface SourceStampData {
 }
 /**
  * context-ingest spec (store-primitives-from-migration-audit D2): records
- * source identity on a note directly — the opportunistic-backfill path for
- * a legacy note that predates identity fields, or any note an operator
- * wants dedupe to recognize without re-running full ingest. `--hash`
- * defaults to the note's CURRENT content hash, matching what `ingest`
- * itself computes.
+ * source identity on a record directly — the opportunistic-backfill path for
+ * a legacy note that predates identity fields, a capture an operator filed by
+ * hand, or anything else dedupe should recognize without re-running full
+ * ingest. `--hash` defaults to the record's CURRENT content hash, computed by
+ * the same sidecar-aware primitive `ingest` uses, so stamping a sidecar
+ * records its subject's bytes rather than its own prose.
  */
 export declare function execute(env: RunEnv, store: Store, flags: SourceStampFlags): Promise<CommandOutcome<SourceStampData>>;
 //# sourceMappingURL=source-stamp.d.ts.map

package/dist/commands/source-stamp.d.ts.map

@@ -1 +1 @@
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+{"version":3,"file":"source-stamp.d.ts","sourceRoot":"","sources":["../../src/commands/source-stamp.ts"],"names":[],"mappings":"AACA,OAAO,KAAK,EAAE,cAAc,EAAE,eAAe,EAAE,MAAM,oBAAoB,CAAC;AAE1E,OAAO,KAAK,EAAE,MAAM,EAAE,MAAM,gBAAgB,CAAC;AAO7C,OAAO,KAAK,EAAE,KAAK,EAAE,MAAM,kBAAkB,CAAC;AAE9C,eAAO,MAAM,QAAQ,EAAE,eAAuC,CAAC;AAE/D,MAAM,WAAW,gBAAgB;IAC/B,IAAI,EAAE,MAAM,CAAC;IACb,EAAE,EAAE,MAAM,CAAC;IACX,IAAI,CAAC,EAAE,MAAM,CAAC;CACf;AAED,MAAM,WAAW,eAAe;IAC9B,IAAI,EAAE,MAAM,CAAC;IACb,QAAQ,EAAE,MAAM,CAAC;IACjB,UAAU,EAAE,MAAM,CAAC;CACpB;AAOD;;;;;;;;GAQG;AACH,wBAAsB,OAAO,CAAC,GAAG,EAAE,MAAM,EAAE,KAAK,EAAE,KAAK,EAAE,KAAK,EAAE,gBAAgB,GAAG,OAAO,CAAC,cAAc,CAAC,eAAe,CAAC,CAAC,CAwB1H"}

package/dist/commands/source-stamp.js

@@ -1,5 +1,5 @@
 import path from 'node:path';
-import { contentHashOfBody } from '../core/content/canonicalize.js';
+import { hashOfCapture } from '../core/ingest/capture-hash.js';
 import { NoteNotFoundError } from '../core/errors.js';
 import { ExitCode } from '../core/exit-codes.js';
 import { writeFileAtomic } from '../core/fs/atomic.js';
@@ -13,11 +13,12 @@ function toStoreRelativePath(env, store, givenPath) {
 }
 /**
  * context-ingest spec (store-primitives-from-migration-audit D2): records
- * source identity on a note directly — the opportunistic-backfill path for
- * a legacy note that predates identity fields, or any note an operator
- * wants dedupe to recognize without re-running full ingest. `--hash`
- * defaults to the note's CURRENT content hash, matching what `ingest`
- * itself computes.
+ * source identity on a record directly — the opportunistic-backfill path for
+ * a legacy note that predates identity fields, a capture an operator filed by
+ * hand, or anything else dedupe should recognize without re-running full
+ * ingest. `--hash` defaults to the record's CURRENT content hash, computed by
+ * the same sidecar-aware primitive `ingest` uses, so stamping a sidecar
+ * records its subject's bytes rather than its own prose.
  */
 export async function execute(env, store, flags) {
     const relativePath = toStoreRelativePath(env, store, flags.path);
@@ -31,7 +32,7 @@ export async function execute(env, store, flags) {
             throw new NoteNotFoundError(relativePath);
         throw err;
     }
-    const sourceHash = flags.hash ?? contentHashOfBody(note.body);
+    const sourceHash = flags.hash ?? (await hashOfCapture(store.root, relativePath)).hash;
     const frontmatter = { ...note.frontmatter, [SOURCE_ID_FIELD]: flags.id, [SOURCE_HASH_FIELD]: sourceHash };
     await writeFileAtomic(absolutePath, renderNoteText(frontmatter, note.body));
     return {

package/dist/commands/source-stamp.js.map

@@ -1 +1 @@
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+{"version":3,"file":"source-stamp.js","sourceRoot":"","sources":["../../src/commands/source-stamp.ts"],"names":[],"mappings":"AAAA,OAAO,IAAI,MAAM,WAAW,CAAC;AAE7B,OAAO,EAAE,aAAa,EAAE,MAAM,gCAAgC,CAAC;AAE/D,OAAO,EAAE,iBAAiB,EAAE,MAAM,mBAAmB,CAAC;AACtD,OAAO,EAAE,QAAQ,EAAE,MAAM,uBAAuB,CAAC;AACjD,OAAO,EAAE,eAAe,EAAE,MAAM,sBAAsB,CAAC;AACvD,OAAO,EAAE,iBAAiB,EAAE,eAAe,EAAE,MAAM,4BAA4B,CAAC;AAChF,OAAO,EAAE,SAAS,EAAE,MAAM,wBAAwB,CAAC;AACnD,OAAO,EAAE,cAAc,EAAE,MAAM,yBAAyB,CAAC;AAGzD,MAAM,CAAC,MAAM,QAAQ,GAAoB,EAAE,KAAK,EAAE,UAAU,EAAE,CAAC;AAc/D,SAAS,mBAAmB,CAAC,GAAW,EAAE,KAAY,EAAE,SAAiB;IACvE,MAAM,QAAQ,GAAG,IAAI,CAAC,UAAU,CAAC,SAAS,CAAC,CAAC,CAAC,CAAC,SAAS,CAAC,CAAC,CAAC,IAAI,CAAC,OAAO,CAAC,GAAG,CAAC,GAAG,EAAE,SAAS,CAAC,CAAC;IAC3F,OAAO,IAAI,CAAC,QAAQ,CAAC,KAAK,CAAC,IAAI,EAAE,QAAQ,CAAC,CAAC,KAAK,CAAC,IAAI,CAAC,GAAG,CAAC,CAAC,IAAI,CAAC,GAAG,CAAC,CAAC;AACvE,CAAC;AAED;;;;;;;;GAQG;AACH,MAAM,CAAC,KAAK,UAAU,OAAO,CAAC,GAAW,EAAE,KAAY,EAAE,KAAuB;IAC9E,MAAM,YAAY,GAAG,mBAAmB,CAAC,GAAG,EAAE,KAAK,EAAE,KAAK,CAAC,IAAI,CAAC,CAAC;IACjE,MAAM,YAAY,GAAG,IAAI,CAAC,IAAI,CAAC,KAAK,CAAC,IAAI,EAAE,YAAY,CAAC,CAAC;IAEzD,IAAI,IAAI,CAAC;IACT,IAAI,CAAC;QACH,IAAI,GAAG,MAAM,SAAS,CAAC,YAAY,EAAE,YAAY,CAAC,CAAC;IACrD,CAAC;IAAC,OAAO,GAAG,EAAE,CAAC;QACb,IAAK,GAA6B,CAAC,IAAI,KAAK,QAAQ;YAAE,MAAM,IAAI,iBAAiB,CAAC,YAAY,CAAC,CAAC;QAChG,MAAM,GAAG,CAAC;IACZ,CAAC;IAED,MAAM,UAAU,GAAG,KAAK,CAAC,IAAI,IAAI,CAAC,MAAM,aAAa,CAAC,KAAK,CAAC,IAAI,EAAE,YAAY,CAAC,CAAC,CAAC,IAAI,CAAC;IACtF,MAAM,WAAW,GAAG,EAAE,GAAG,IAAI,CAAC,WAAW,EAAE,CAAC,eAAe,CAAC,EAAE,KAAK,CAAC,EAAE,EAAE,CAAC,iBAAiB,CAAC,EAAE,UAAU,EAAE,CAAC;IAC1G,MAAM,eAAe,CAAC,YAAY,EAAE,cAAc,CAAC,WAAW,EAAE,IAAI,CAAC,IAAI,CAAC,CAAC,CAAC;IAE5E,OAAO;QACL,QAAQ,EAAE,QAAQ,CAAC,EAAE;QACrB,IAAI,EAAE,EAAE,IAAI,EAAE,YAAY,EAAE,QAAQ,EAAE,KAAK,CAAC,EAAE,EAAE,UAAU,EAAE;QAC5D,QAAQ,EAAE,EAAE;QACZ,YAAY,EAAE,YAAY,YAAY,kBAAkB,KAAK,CAAC,EAAE,IAAI;QACpE,SAAS,EAAE,KAAK,CAAC,IAAI;QACrB,aAAa,EAAE,KAAK,CAAC,MAAM,CAAC,cAAc;KAC3C,CAAC;AACJ,CAAC"}

package/dist/config/defaults.d.ts

@@ -56,8 +56,24 @@ export declare const DEFAULT_MISSION_FILE_NAME = "mission.md";
 export declare const DEFAULT_MISSION_PATH = ".contexture/guidance/mission.md";
 /** store-integrity spec: AGENTS.md's inlined "Store conventions" section's size ceiling when `harness.convention_max_bytes` is unset. */
 export declare const DEFAULT_CONVENTION_MAX_BYTES: number;
-/** Paths excluded from every retrieval leg by default. */
-export declare const DEFAULT_EXCLUDE_PATHS: readonly ['.contexture/'];
+/**
+ * context-ingest spec: the capture tier's root. Everything beneath it is
+ * material that arrived rather than knowledge someone wrote, so it is
+ * excluded from retrieval and never becomes a note — but it IS tracked in
+ * git, because a retained capture is provenance, not regenerable output.
+ */
+export declare const DEFAULT_CAPTURE_ROOT = "raw/";
+/** Paths excluded from every retrieval leg by default — contexture's own directory, and the capture tier. */
+export declare const DEFAULT_EXCLUDE_PATHS: readonly ['.contexture/', "raw/"];
+/**
+ * compose-the-retrieval-pass spec (D10/D11): path prefixes that stay fully
+ * retrievable but sort after everything else. Empty here because the shipped
+ * value is not a literal — `init` seeds it from the taxonomy's own resolved
+ * archive destination, so a custom taxonomy demotes its archive, not PARA's.
+ */
+export declare const DEFAULT_DEMOTE_PATHS: readonly string[];
+/** compose-the-retrieval-pass spec: how many notes `ctxr context gather` returns before it reports truncation. */
+export declare const DEFAULT_GATHER_MAX_NOTES = 50;
 /** graph-context-document spec: no relation vocabulary by default — no typed edges until a store declares names. */
 export declare const DEFAULT_RELATIONS: readonly string[];
 /** graph-context-document spec: positional clusters two directory segments deep; document sections capped for readability. */
@@ -79,8 +95,13 @@ export declare const DEFAULT_CATALOG_PATH = ".contexture/catalog/";
 export declare const DEFAULT_CATALOG_SECTION_MAX_BYTES: number;
 /** publish spec: where published pages live — tracked, authored-but-tool-owned, excluded from retrieval like the catalog and skill pack. */
 export declare const DEFAULT_PUBLISH_PATH = ".contexture/publish/";
-/** context-ingest spec: capture's landing zone — a normal, retrievable directory, not an exclusion. */
-export declare const DEFAULT_INBOX_PATH = "inbox/";
+/**
+ * context-ingest spec: capture's landing zone — the not-yet-ingested state
+ * inside the capture tier. Nesting it under the capture root is what lets a
+ * single prefix serve both the retrieval exclusion and the write-path gate;
+ * the schema enforces the nesting.
+ */
+export declare const DEFAULT_INBOX_PATH = "raw/inbox/";
 /** store-primitives-from-migration-audit spec (D2): the shipped tracking-parameter list source check strips before comparing URL identities. */
 export declare const DEFAULT_TRACKING_PARAMS: string[];
 /**
@@ -100,4 +121,82 @@ export declare const DEFAULT_ROLLUP_STALE_DAYS = 7;
  * it was addable.
  */
 export declare const DEFAULT_ADAPTERS: readonly AdapterDeclaration[];
+/**
+ * Every configuration value contexture ships an opinion about, in one place,
+ * shaped like the config itself. `StoreConfigSchema` takes its `.default(...)`
+ * values from here and `renderStoreConfig` reads it to decide what a written
+ * config may omit — the two have to agree, and the only way to guarantee that
+ * is for them to read the same object.
+ *
+ * What is deliberately ABSENT from this object is as load-bearing as what is
+ * in it. A key appears here only when its correct value depends on nothing:
+ *
+ * - `schema_version`, `taxonomy` and `git.default_branch` are facts about the
+ *   individual store. `git.default_branch` records whatever branch `git init`
+ *   actually created and is never hardcoded (see `GitSchema`).
+ * - `organize.archive_destination` is derived: a shipped profile supplies it
+ *   from the taxonomy at init, so a constant here would give every PARA store
+ *   `archive/` while its own taxonomy declares `archives/` — the defect
+ *   `archive-destination-from-taxonomy` was written to fix.
+ * - `organize.mission_path` is an opt-in whose absence is meaningful: call
+ *   sites branch on the key's presence to decide whether the store has a
+ *   mission mechanism at all. `DEFAULT_MISSION_PATH` is what `init` seeds,
+ *   not what an omission resolves to.
+ * - `harness.procedures_path` and `harness.conventions_path` are pre-rename
+ *   spellings, read only as fallbacks by `HarnessSchema`'s transform.
+ */
+export declare const SHIPPED_DEFAULTS: {
+    readonly derived: {
+        readonly paths: readonly [".contexture/cache/"];
+    };
+    readonly retrieval: {
+        readonly exclude_paths: readonly [".contexture/", "raw/"];
+        readonly demote_paths: readonly string[];
+        readonly gather_max_notes: 50;
+        readonly relations: readonly string[];
+        readonly graph: {
+            cluster_depth: number;
+            hub_top: number;
+            bridge_top: number;
+            orphan_exempt_clusters: string[];
+        };
+    };
+    readonly session: {
+        readonly branch_prefix: "session/";
+        readonly worktrees_path: ".worktrees/";
+    };
+    readonly write_lifecycle: {
+        readonly diff_size_ceiling_lines: 2000;
+        readonly writable_paths: string[];
+    };
+    readonly catalog: {
+        readonly path: ".contexture/catalog/";
+        readonly section_max_bytes: number;
+    };
+    readonly publish: {
+        readonly path: ".contexture/publish/";
+    };
+    readonly skills: {
+        readonly vendored: readonly ["frontend-design", "eli5"];
+    };
+    readonly ingest: {
+        readonly inbox_path: "raw/inbox/";
+        readonly capture_root: "raw/";
+        readonly tracking_params: string[];
+    };
+    readonly organize: {
+        readonly rollup_stale_days: 7;
+    };
+    readonly harness: {
+        readonly skills_path: ".agents/skills/";
+        readonly guidance_path: ".contexture/guidance/";
+        readonly convention_max_bytes: number;
+    };
+    readonly adapters: readonly {
+        id: string;
+        kind: "harness-generation";
+        module?: string | undefined;
+        skills_dir?: string | undefined;
+    }[];
+};
 //# sourceMappingURL=defaults.d.ts.map

package/dist/config/defaults.d.ts.map

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