ctxr-cli 0.19.0 → 0.20.1

package/dist/core/agents-doc.js.map

@@ -1 +1 @@
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package/dist/core/checks/write-lifecycle-checks.d.ts

@@ -15,6 +15,14 @@ export declare const stagedSecretScanCheck: import("./types.js").CheckDefinition
  * write time, so the two can never disagree.
  */
 export declare const stagedPathAllowlistCheck: import("./types.js").CheckDefinition;
+/**
+ * exempt-shipped-skill-files-from-the-diff-ceiling: the ceiling bounds what an
+ * agent can stage unreviewed, and contexture's own writes are not that — a fresh
+ * `init` stages every owned and vendored skill in one commit. A staged file is
+ * left out of the count when its staged content is byte-identical to what the
+ * installed version ships for its path. Identity, not location: a file that
+ * differs by one byte, one that is not shipped, and every deletion count in full.
+ */
 export declare const stagedDiffSizeCeilingCheck: import("./types.js").CheckDefinition;
 /**
  * store-scope (not staged): are both hooks present with current content,

package/dist/core/checks/write-lifecycle-checks.d.ts.map

@@ -1 +1 @@
-{"version":3,"file":"write-lifecycle-checks.d.ts","sourceRoot":"","sources":["../../../src/core/checks/write-lifecycle-checks.ts"],"names":[],"mappings":"AAYA;;;;GAIG;AACH,eAAO,MAAM,4BAA4B,sCAyCvC,CAAC;AAEH,eAAO,MAAM,yBAAyB,sCAsBpC,CAAC;AAEH,eAAO,MAAM,qBAAqB,sCAqBhC,CAAC;AAEH;;;;;;;GAOG;AACH,eAAO,MAAM,wBAAwB,sCAqCnC,CAAC;AAEH,eAAO,MAAM,0BAA0B,sCA2BrC,CAAC;AAEH;;;;;GAKG;AACH,eAAO,MAAM,gBAAgB,sCAiC3B,CAAC;AAEH,eAAO,MAAM,sBAAsB,wCAOlC,CAAC"}
+{"version":3,"file":"write-lifecycle-checks.d.ts","sourceRoot":"","sources":["../../../src/core/checks/write-lifecycle-checks.ts"],"names":[],"mappings":"AAaA;;;;GAIG;AACH,eAAO,MAAM,4BAA4B,sCAyCvC,CAAC;AAEH,eAAO,MAAM,yBAAyB,sCAsBpC,CAAC;AAEH,eAAO,MAAM,qBAAqB,sCAqBhC,CAAC;AAEH;;;;;;;GAOG;AACH,eAAO,MAAM,wBAAwB,sCAqCnC,CAAC;AAEH;;;;;;;GAOG;AACH,eAAO,MAAM,0BAA0B,sCAgCrC,CAAC;AAEH;;;;;GAKG;AACH,eAAO,MAAM,gBAAgB,sCAiC3B,CAAC;AAEH,eAAO,MAAM,sBAAsB,wCAOlC,CAAC"}

package/dist/core/checks/write-lifecycle-checks.js

@@ -5,6 +5,7 @@ import { parseNoteText } from '../notes/parse.js';
 import { scanForSecrets } from '../security/secrets.js';
 import { validateFenceIntegrity } from '../fs/fenced-region.js';
 import { sanctionedPath } from '../write-lifecycle/path-gate.js';
+import { shippedSkillFiles } from '../skills.js';
 import { defineCheck } from './types.js';
 const CONFIG_FILE_NAME = 'contexture.yaml';
 /**
@@ -148,6 +149,14 @@ export const stagedPathAllowlistCheck = defineCheck({
         return { status: findings.length > 0 ? 'fail' : 'pass', findings };
     },
 });
+/**
+ * exempt-shipped-skill-files-from-the-diff-ceiling: the ceiling bounds what an
+ * agent can stage unreviewed, and contexture's own writes are not that — a fresh
+ * `init` stages every owned and vendored skill in one commit. A staged file is
+ * left out of the count when its staged content is byte-identical to what the
+ * installed version ships for its path. Identity, not location: a file that
+ * differs by one byte, one that is not shipped, and every deletion count in full.
+ */
 export const stagedDiffSizeCeilingCheck = defineCheck({
     id: 'staged.diff_size_ceiling',
     title: 'Total staged diff size is under the configured ceiling',
@@ -155,17 +164,27 @@ export const stagedDiffSizeCeilingCheck = defineCheck({
     capability: 'write-lifecycle',
     scopes: ['staged'],
     async run(ctx) {
-        const total = (ctx.staged ?? []).reduce((sum, file) => sum + (file.addedLines ?? 0) + (file.removedLines ?? 0), 0);
+        const shipped = await shippedSkillFiles(ctx.config);
+        let total = 0;
+        let leftOut = 0;
+        for (const file of ctx.staged ?? []) {
+            const lines = (file.addedLines ?? 0) + (file.removedLines ?? 0);
+            if (file.status !== 'D' && file.content !== undefined && shipped.get(file.path) === file.content)
+                leftOut += lines;
+            else
+                total += lines;
+        }
         const ceiling = ctx.config.write_lifecycle.diff_size_ceiling_lines;
         if (total > ceiling) {
+            const note = leftOut > 0 ? ` (${leftOut} more changed lines are skill files identical to what this version ships, and are not counted)` : '';
             return {
                 status: 'fail',
                 findings: [
                     {
                         code: 'staged.diff_size_ceiling.exceeded',
                         severity: 'error',
-                        message: `Staged changes total ${total} changed lines, exceeding the configured ceiling of ${ceiling}.`,
-                        details: { total, ceiling },
+                        message: `Staged changes total ${total} changed lines, exceeding the configured ceiling of ${ceiling}${note}.`,
+                        details: { total, ceiling, left_out: leftOut },
                     },
                 ],
             };

package/dist/core/checks/write-lifecycle-checks.js.map

@@ -1 +1 @@
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package/dist/core/conventions.d.ts

@@ -32,10 +32,9 @@ export declare function extractDocMetadata(raw: string, relativePath: string): S
 export declare function inlineDocBody(doc: ScannedDoc, headingOffset: number): string[];
 export declare function scanDocsDir(root: string, dirRelativePath: string): Promise<ScannedDoc[]>;
 /**
- * Every convention doc currently at the configured guidance path —
- * contexture's own shipped baseline (see `templates/conventions/baseline-conventions.md`,
- * synced by `syncBaselineConventions` in `convention-doc.ts`) alongside
- * whatever the operator has added — minus the mission document.
+ * Every convention doc the operator has put at the configured guidance path,
+ * minus the mission document. The shipped baseline is not among them: it is
+ * rendered into AGENTS.md by `renderBaselineConventions` in `convention-doc.ts`.
  */
 export declare function scanConventions(root: string, config: StoreConfig): Promise<ScannedDoc[]>;
 //# sourceMappingURL=conventions.d.ts.map

package/dist/core/conventions.d.ts.map

@@ -1 +1 @@
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+{"version":3,"file":"conventions.d.ts","sourceRoot":"","sources":["../../src/core/conventions.ts"],"names":[],"mappings":"AAEA,OAAO,KAAK,EAAE,WAAW,EAAE,MAAM,qBAAqB,CAAC;AAIvD;;;;;;;;GAQG;AACH,MAAM,WAAW,UAAU;IACzB,gEAAgE;IAChE,IAAI,EAAE,MAAM,CAAC;IACb,KAAK,EAAE,MAAM,CAAC;IACd,WAAW,EAAE,MAAM,GAAG,IAAI,CAAC;IAC3B,gDAAgD;IAChD,IAAI,EAAE,MAAM,CAAC;CACd;AAID,oGAAoG;AACpG,eAAO,MAAM,eAAe,aAAa,CAAC;AAE1C,wBAAgB,kBAAkB,CAAC,GAAG,EAAE,MAAM,EAAE,YAAY,EAAE,MAAM,GAAG,UAAU,CA4BhF;AAID;;;;;;;;;GASG;AACH,wBAAgB,aAAa,CAAC,GAAG,EAAE,UAAU,EAAE,aAAa,EAAE,MAAM,GAAG,MAAM,EAAE,CAyB9E;AAED,wBAAsB,WAAW,CAAC,IAAI,EAAE,MAAM,EAAE,eAAe,EAAE,MAAM,GAAG,OAAO,CAAC,UAAU,EAAE,CAAC,CAgC9F;AAgBD;;;;GAIG;AACH,wBAAsB,eAAe,CAAC,IAAI,EAAE,MAAM,EAAE,MAAM,EAAE,WAAW,GAAG,OAAO,CAAC,UAAU,EAAE,CAAC,CAI9F"}

package/dist/core/conventions.js

@@ -122,10 +122,9 @@ function reservedGuidanceFileNames(config) {
     return names;
 }
 /**
- * Every convention doc currently at the configured guidance path —
- * contexture's own shipped baseline (see `templates/conventions/baseline-conventions.md`,
- * synced by `syncBaselineConventions` in `convention-doc.ts`) alongside
- * whatever the operator has added — minus the mission document.
+ * Every convention doc the operator has put at the configured guidance path,
+ * minus the mission document. The shipped baseline is not among them: it is
+ * rendered into AGENTS.md by `renderBaselineConventions` in `convention-doc.ts`.
  */
 export async function scanConventions(root, config) {
     const docs = await scanDocsDir(root, config.harness.guidance_path);

package/dist/core/conventions.js.map

@@ -1 +1 @@
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package/dist/core/reconcile.d.ts

@@ -11,7 +11,8 @@ export interface ReconcileResult {
 /**
  * Brings every contexture-OWNED file in a store to the installed package's
  * version: the managed .gitignore blocks, every generated AGENTS.md
- * section, the contexture-owned skill copies, and the git hooks. Operator
+ * section, the contexture-owned skill copies, every declared harness's
+ * adapter outputs, and the git hooks. Operator
  * content is never rewritten. Shared by `ctxr init` (reconciling an
  * existing store) and `ctxr update` (after upgrading contexture).
  * Byte-stable: a second run with nothing changed writes nothing.

package/dist/core/reconcile.d.ts.map

@@ -1 +1 @@
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+{"version":3,"file":"reconcile.d.ts","sourceRoot":"","sources":["../../src/core/reconcile.ts"],"names":[],"mappings":"AAEA,OAAO,KAAK,EAAE,WAAW,EAAE,MAAM,qBAAqB,CAAC;AAGvD,OAAO,KAAK,EAAE,MAAM,EAAE,MAAM,UAAU,CAAC;AAWvC,OAAO,KAAK,EAAE,OAAO,EAAE,MAAM,eAAe,CAAC;AAS7C,eAAO,MAAM,yBAAyB,8BAA4B,CAAC;AAwBnE,MAAM,WAAW,eAAe;IAC9B,+EAA+E;IAC/E,OAAO,EAAE,MAAM,EAAE,CAAC;IAClB,2EAA2E;IAC3E,QAAQ,EAAE,OAAO,EAAE,CAAC;CACrB;AAED;;;;;;;;GAQG;AACH,wBAAsB,cAAc,CAAC,GAAG,EAAE,MAAM,EAAE,IAAI,EAAE,MAAM,EAAE,MAAM,EAAE,WAAW,GAAG,OAAO,CAAC,eAAe,CAAC,CA2E7G"}

package/dist/core/reconcile.js

@@ -1,6 +1,7 @@
 import path from 'node:path';
 import { DEFAULT_BASELINE_CONVENTIONS_FILE_NAME } from '../config/defaults.js';
 import { CLI_VERSION } from '../version.js';
+import { generateAdapterOutputs } from './adapter-outputs.js';
 import { agentsMdPath, AGENTS_MD_SECTION_ORDER, buildAgentsCanonicalSection, buildAgentsCaptureSection, buildAgentsConventionsSection, buildAgentsLegRoutingSection, buildAgentsMissionSection, buildAgentsPlacementSection, } from './agents-doc.js';
 import { removeManagedBaselineFile } from './convention-doc.js';
 import { removeFencedRegionFromFile, reorderFencedRegionsInFile, upsertFencedRegionInFile } from './fs/fenced-region.js';
@@ -33,7 +34,8 @@ const RETIRED_AGENTS_MD_STORE_CONVENTIONS_FENCE = htmlCommentFence('store-conven
 /**
  * Brings every contexture-OWNED file in a store to the installed package's
  * version: the managed .gitignore blocks, every generated AGENTS.md
- * section, the contexture-owned skill copies, and the git hooks. Operator
+ * section, the contexture-owned skill copies, every declared harness's
+ * adapter outputs, and the git hooks. Operator
  * content is never rewritten. Shared by `ctxr init` (reconciling an
  * existing store) and `ctxr update` (after upgrading contexture).
  * Byte-stable: a second run with nothing changed writes nothing.
@@ -68,9 +70,9 @@ export async function reconcileStore(env, root, config) {
     // themselves are current, so a freshly created bridge or copy reflects
     // this run's content, not a stale one.
     changed.push(...(await bridgeHarnessSkills(root, config)).map((r) => r.path));
-    // Same reason, same ordering constraint as skills: the shipped baseline
-    // convention file must be current on disk BEFORE buildAgentsConventionsSection
-    // scans the guidance directory and inlines it (compose-store-guidance-documents).
+    // A managed baseline copy an earlier version wrote must be gone BEFORE
+    // buildAgentsConventionsSection scans the guidance directory, or the
+    // baseline would be inlined twice: once rendered, once scanned.
     note(path.join(config.harness.guidance_path, DEFAULT_BASELINE_CONVENTIONS_FILE_NAME).split(path.sep).join('/'), (await removeManagedBaselineFile(root, config)).changed);
     let agentsChanged = false;
     for (const build of [
@@ -95,6 +97,11 @@ export async function reconcileStore(env, root, config) {
     if ((await reorderFencedRegionsInFile(agentsMdPath(root), AGENTS_MD_SECTION_ORDER)).changed)
         agentsChanged = true;
     note('AGENTS.md', agentsChanged);
+    // init-generates-harness-adapter-output: inside the shared reconcile, not
+    // beside it, so `ctxr init` on an existing store cannot miss it again the
+    // way it did when only `ctxr update` called the generator.
+    for (const file of await generateAdapterOutputs({ root, config }))
+        note(file.path, file.changed);
     const { changed: hookFiles } = await installHooks(root, config.git.default_branch);
     changed.push(...hookFiles);
     await configureHooksPath(env.git, root);

package/dist/core/reconcile.js.map

@@ -1 +1 @@
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package/dist/core/skills.d.ts

@@ -73,6 +73,21 @@ export declare function skillPaths(config: StoreConfig): string[];
  */
 export declare function syncShippedSkills(root: string, config: StoreConfig): Promise<string[]>;
 export declare function syncSkillSeeds(root: string, config: StoreConfig, seeds: readonly SkillSeed[]): Promise<string[]>;
+/**
+ * exempt-shipped-skill-files-from-the-diff-ceiling: every path under the
+ * configured skills path, mapped to the exact content the installed version
+ * writes there — each owned skill's SKILL.md, its supporting files, and the
+ * packaged files of each vendored skill the store declares. This is what
+ * `init` and `update` put on disk, so a staged file whose content equals the
+ * entry for its path is contexture's own write and not an edit.
+ *
+ * Vendored provenance records are absent on purpose: each is generated per
+ * store (it carries the installed CLI version), so no packaged file can match
+ * it, and it stays in the diff count. A declared vendored name the package does
+ * not carry is left out here; reporting it is `syncVendoredSkills`' job.
+ * Paths are store-relative and posix, the spelling `skillPaths` and git use.
+ */
+export declare function shippedSkillFiles(config: StoreConfig, seeds?: readonly SkillSeed[]): Promise<Map<string, string>>;
 /**
  * harness-portability spec (vendored-craft-skills): the provenance record
  * a vendored skill carries — packaged once per skill under

package/dist/core/skills.d.ts.map

@@ -1 +1 @@
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package/dist/core/skills.js

@@ -125,7 +125,10 @@ const CAPTURE = {
     file: 'ctxr-capture',
     name: 'Capture',
     description: 'Bring material from outside the store into the inbox as a faithful record carrying its source identity, then hand off to ingest.',
-    body: (config) => skillTemplate('ctxr-capture').replaceAll('__INBOX_PATH__', config.ingest.inbox_path).split('\n'),
+    body: (config) => skillTemplate('ctxr-capture')
+        .replaceAll('__INBOX_PATH__', config.ingest.inbox_path)
+        .replaceAll('__CAPTURE_ROOT__', config.ingest.capture_root)
+        .split('\n'),
 };
 const INGEST_ORCHESTRATION = {
     file: 'ctxr-ingest-orchestration',
@@ -240,6 +243,20 @@ const PUBLISH = {
     description: 'Turn store content into a shareable HTML page for a subtree, note, or entity, resolving its source notes before any content is copied out.',
     body: () => skillTemplate('ctxr-publish').split('\n'),
 };
+/**
+ * ship-a-cross-model-second-opinion-skill: the first owned skill that ships
+ * more than its SKILL.md. The runner and its prompt fragments live under
+ * `templates/skills/ctxr-second-opinion/`, and the body names where the
+ * store's skills path put them. Named for the judgment, not a command: there
+ * is no `ctxr second-opinion`, and the skill drives no ctxr command at all.
+ */
+const SECOND_OPINION = {
+    file: 'ctxr-second-opinion',
+    name: 'Second opinion',
+    description: 'Get an independent critique of a plan, or a poll on a taste call, from three different model families run in parallel, and synthesize their answers without running the plan.',
+    body: (config) => skillTemplate('ctxr-second-opinion').replaceAll('__SKILLS_PATH__', config.harness.skills_path.replace(/\/+$/, '')).split('\n'),
+    supportingFiles: () => skillSupportingFiles('ctxr-second-opinion'),
+};
 export const SKILLS = [
     CAPTURE,
     INGEST_ORCHESTRATION,
@@ -256,6 +273,7 @@ export const SKILLS = [
     DERIVED_ARTIFACTS,
     ORGANIZE_AUDIT,
     PUBLISH,
+    SECOND_OPINION,
 ];
 /** The owned skills, rendered against one store's configuration — what `syncShippedSkills` writes. */
 export function renderSkills(config) {
@@ -355,6 +373,40 @@ export async function syncSkillSeeds(root, config, seeds) {
     }
     return changed;
 }
+/**
+ * exempt-shipped-skill-files-from-the-diff-ceiling: every path under the
+ * configured skills path, mapped to the exact content the installed version
+ * writes there — each owned skill's SKILL.md, its supporting files, and the
+ * packaged files of each vendored skill the store declares. This is what
+ * `init` and `update` put on disk, so a staged file whose content equals the
+ * entry for its path is contexture's own write and not an edit.
+ *
+ * Vendored provenance records are absent on purpose: each is generated per
+ * store (it carries the installed CLI version), so no packaged file can match
+ * it, and it stays in the diff count. A declared vendored name the package does
+ * not carry is left out here; reporting it is `syncVendoredSkills`' job.
+ * Paths are store-relative and posix, the spelling `skillPaths` and git use.
+ */
+export async function shippedSkillFiles(config, seeds = SKILLS) {
+    const shipped = new Map();
+    const at = (...parts) => path.join(config.harness.skills_path, ...parts).split(path.sep).join('/');
+    for (const skill of renderSkillSeeds(seeds, config)) {
+        shipped.set(at(skill.file, SKILL_FILE_NAME), skill.content);
+        for (const [rel, content] of skill.supportingFiles)
+            shipped.set(at(skill.file, rel), content);
+    }
+    for (const name of config.skills.vendored) {
+        try {
+            const { files } = await readVendoredPayload(name);
+            for (const [rel, content] of files)
+                shipped.set(at(name, rel), content);
+        }
+        catch {
+            // not a packaged vendored skill: nothing is shipped for it
+        }
+    }
+    return shipped;
+}
 /** Every file under `dir`, as sorted posix paths relative to it. */
 async function listFilesUnder(dir, sub = '') {
     const out = [];

package/dist/core/skills.js.map

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package/dist/version.d.ts

@@ -1,5 +1,5 @@
 /** Kept in sync with package.json's "version" field. */
-export declare const CLI_VERSION = "0.19.0";
+export declare const CLI_VERSION = "0.20.1";
 /**
  * The npm package this executable is published as. Bound here, beside the
  * version, because the release check resolves the latest published release by

package/dist/version.js

@@ -1,5 +1,5 @@
 /** Kept in sync with package.json's "version" field. */
-export const CLI_VERSION = '0.19.0';
+export const CLI_VERSION = '0.20.1';
 /**
  * The npm package this executable is published as. Bound here, beside the
  * version, because the release check resolves the latest published release by

package/package.json

@@ -1,6 +1,6 @@
 {
   "name": "ctxr-cli",
-  "version": "0.19.0",
+  "version": "0.20.1",
   "description": "Context store for AI coding agents — markdown and git, catalog and graph retrieval, no vector database.",
   "type": "module",
   "license": "MIT",

package/templates/agents/canonical.md

@@ -14,11 +14,13 @@ The worktree step is why a command run inside a session worktree operates on tha
 
 A new note starts from a template under `__TEMPLATES_PATH__`, not from a blank file and not by copying whatever sibling happens to be nearby. Substitute `{{title}}` and `{{date}}` as you write it — no command expands them, and a note that lands with one still in it is reported by `ctxr lint`. A template is never a note: nothing under that path is catalogued, graphed, or retrieved. Add your own kinds there alongside the shipped ones; contexture only ever rewrites the ones it delivered.
 
+Every shipped template except the base, `Note`, stamps the kind it is for into the note's `tags`. Keep it when you start a note: it is how you find every note of a kind, with your own search, since no `ctxr` command filters by it. A kind you cut from the base should stamp its own name the same way, and any further tags are this store's own.
+
 ### Write path
 
 Every write to this store happens inside a session worktree, never directly on the default branch: `ctxr session start` creates one, and the work stays there for as long as the session runs. When the operator asks to wrap up, `ctxr-submit` validates with `ctxr doctor`, commits, pushes, and opens (or reports how to open) a pull request — that request is what triggers it, not having finished a piece of work. Do not edit files in the store root directly.
 
-### Identity and memory
+### Identity and recall
 
-Identity, persona, and durable cross-session memory for the agent working this store belong to its harness, not to this store — the store holds knowledge and skills, documented as portable markdown under `__SKILLS_PATH__`, never a persona or memory file of its own.
+Identity, persona, and the agent's conversational recall — what it remembers of the user and of itself from one session to the next — belong to its harness, not to this store. Subject-matter knowledge belongs here, including anything worth finding again in a later session: the store holds knowledge and skills, documented as portable markdown under `__SKILLS_PATH__`, and never a persona or recall file of its own.
 __MISSION_POINTER__

package/templates/agents/retrieval-leg-routing.md

@@ -36,5 +36,11 @@ __EXCLUSION_PATHS__
 
 Feed anything it finds back in as `--seed` to pick the pass up again from there.
 
+Those exclusions are for finding knowledge. Captures under `__CAPTURE_ROOT__` are left out because they
+are provenance, not notes, so a search scoped this way never finds one. When the question is whether
+the store already holds some material — a document, a meeting, a thread — search `__CAPTURE_ROOT__`
+directly, by content and by the `capture_file` a capture names. Finding nothing in the notes is not
+evidence that it was never captured.
+
 There is no `ctxr search` command. Nothing here takes a free-text query, and no result carries a
 relevance score. Ranked or semantic search is deferred to a future version — do not look for one.

package/templates/notes/Concept.md

@@ -1,7 +1,8 @@
 ---
 date_created: "{{date}}"
 title: "{{title}}"
-tags: []
+tags:
+  - Concept
 ---
 # {{title}}
 

package/templates/skills/ctxr-capture.md

@@ -47,7 +47,9 @@ markdown, not at the bytes.
 ## 4. Check before you write it into the inbox
 
 If the material may already be in the store, run `ctxr source check <path> --source-id <id>` and read
-the verdict before going further. Re-capturing something the store already holds is how one source ends
+the verdict before going further. That check compares material you already hold; before fetching
+anything, search `__CAPTURE_ROOT__` for it by content and by `capture_file`. The retrieval pass leaves
+that directory out, so a search scoped by it will never find a capture. Re-capturing something the store already holds is how one source ends
 up cited twice under two identities.
 
 Then write the file into `__INBOX_PATH__`. Nothing else — no note, no edit to an existing note, no