codealmanac 0.2.5 → 0.2.7

package/README.md

@@ -26,9 +26,9 @@ A single `CLAUDE.md` at the repo root doesn't scale past a few hundred lines, ha
 
 ## How it works
 
-Each repo gets a committed `.almanac/pages/` directory of markdown files. Auto-capture hooks fire when Claude Code, Codex, or Cursor Agent sessions end and run `almanac capture` in the background. A writer agent reads the session transcript and existing pages, drafts changes, and runs a reviewer pass against the wider graph. The writer applies the final versions. New and updated pages show up in your next `git status`; you review them like any other commit.
+Each repo gets a committed `.almanac/pages/` directory of markdown files. Auto-capture hooks fire when Claude Code, Codex, or Cursor Agent sessions end and run `almanac capture` in the background. CodeAlmanac builds one provider-neutral run spec, starts it through the process manager, and records local run state in `.almanac/runs/`. New and updated pages show up in your next `git status`; you review them like any other commit.
 
-The CLI never reads or writes page content except in `capture` and `bootstrap`. Every other command (`search`, `show`, `topics`, `tag`, `health`) operates on a SQLite index that rebuilds silently whenever pages are newer than the index.
+The CLI only invokes AI for the write-capable lifecycle commands: `init`, `capture`, `ingest`, and `garden`. Every query or organization command (`search`, `show`, `topics`, `tag`, `health`) operates on a SQLite index that rebuilds silently whenever pages are newer than the index.
 
 ## Install
 
@@ -42,17 +42,18 @@ codealmanac --yes
 ```
 
 `codealmanac` (the bare invocation) routes to a setup wizard that:
-- lets you choose a default provider: Claude, Codex, or Cursor,
-- lets you choose a provider-local model or inherit the provider default,
-- reports local provider readiness,
-- installs auto-capture hooks for supported agents,
-- installs the codealmanac guide into the selected provider's instruction surface: Claude uses `~/.claude/CLAUDE.md`, Codex uses `~/.codex/AGENTS.md`, and Cursor uses `.cursor/rules/codealmanac.mdc`.
+- lets you choose a default agent: Claude, Codex, or Cursor,
+- lets you choose a provider model or inherit the provider default,
+- checks local agent readiness,
+- installs auto-capture hooks for Claude, Codex, and Cursor,
+- drops two agent guides into `~/.claude/` (`codealmanac.md` mini, `codealmanac-reference.md` full),
+- appends `@~/.claude/codealmanac.md` to `~/.claude/CLAUDE.md` so every Claude Code session loads the mini guide.
 
 The setup is idempotent — safe to re-run. Opt out with `--skip-hook` or `--skip-guides`. Later, `almanac uninstall` reverses it.
 
 Two binaries ship, both pointing at the same entry: `codealmanac` (install surface) and `almanac` (day-to-day). Requires Node 20 or 22.
 
-`bootstrap` and `capture` invoke your configured default provider. Claude uses the bundled Claude Agent SDK, Codex uses `codex exec --json`, and Cursor uses `cursor-agent --print --output-format stream-json`. The query commands (`search`, `show`, `health`, `topics`) need no credentials at all.
+`init`, `capture`, `ingest`, and `garden` invoke your configured default provider unless `--using <provider[/model]>` overrides it. Claude uses the bundled Claude Agent SDK, Codex uses `codex exec --json`, and Cursor is currently an explicit future-work adapter. The query commands (`search`, `show`, `health`, `topics`) need no credentials at all.
 
 ## Authentication
 
@@ -98,7 +99,7 @@ codealmanac                   # interactive setup wizard; choose provider + mode
                               # (or: codealmanac --yes)
 
 cd your-repo
-almanac bootstrap             # default provider reads the repo and seeds pages + topic DAG
+almanac init                  # default provider reads the repo and builds the wiki
 
 almanac search "auth"         # full-text search across pages
 almanac show checkout-flow    # read a page
@@ -108,7 +109,7 @@ almanac show checkout-flow    # read a page
 # based on what happened in the session.
 ```
 
-No `almanac init`. A wiki is scaffolded two ways: run `almanac bootstrap` yourself, or clone a repo that already has `.almanac/` committed (codealmanac auto-registers it on the first query).
+A wiki is scaffolded two ways: run `almanac init` yourself, or clone a repo that already has `.almanac/` committed (codealmanac auto-registers it on the first query).
 
 Sanity-check the install with `almanac doctor` and `almanac agents list` — they report binary location, native SQLite binding, provider readiness, hook status, guides, import line, and current-wiki stats.
 
@@ -132,23 +133,24 @@ almanac tag <page> <topic...>                # add topics to a page
 almanac health                               # graph integrity report
 
 # Wiki lifecycle
-almanac bootstrap --agent codex              # seed a new wiki from the repo
-almanac capture --agent cursor <transcript>  # update wiki from a transcript
+almanac init --using codex                   # build a new wiki from the repo
+almanac capture --using claude <transcript>  # update wiki from a session transcript
 almanac capture --json <transcript>          # structured CommandOutcome output
+almanac ingest docs/adr.md                   # absorb files or folders into the wiki
+almanac garden                               # audit and improve the wiki
+almanac jobs                                 # list local background runs
 almanac hook install --source all            # auto-capture for Claude/Codex/Cursor
 
 # Setup & diagnose
-almanac agents list                          # provider readiness + current model
+almanac agents list                          # provider readiness + default
 almanac agents use codex                     # change default provider
 almanac agents model claude claude-opus-4-6  # set provider model
-almanac agents model claude --default        # inherit provider default
 almanac config list --show-origin            # scriptable settings view
 almanac doctor                               # check install + wiki health
 almanac update                               # update to latest version
 ```
 
-`bootstrap` and `capture` resolve provider settings in the standard order:
-`--agent` / `--model`, then `ALMANAC_AGENT` / `ALMANAC_MODEL`, then config.
+`init`, `capture`, `ingest`, and `garden` resolve provider settings through `--using <provider[/model]>`, then provider config.
 
 All query commands output slugs one per line. Add `--json` for structured output. Pipe with `--stdin`:
 
@@ -161,15 +163,15 @@ Run `almanac <command> --help` for the full flag surface.
 
 ## How capture works
 
-When a Claude, Codex, or Cursor session ends, the installed hook backgrounds `almanac capture`. The writer agent reads the session transcript, runs `almanac search` and `almanac show` against the existing wiki, drafts changes to pages under `.almanac/pages/`, and performs a reviewer pass. Claude uses its SDK's read-only reviewer subagent; Codex and Cursor perform the reviewer pass from prompt guidance until stricter provider enforcement lands. The reviewer checks duplicates, missing wikilinks, missing topics, inference dressed as fact, and cohesion problems. The writer decides what to incorporate and writes the final versions.
+When a Claude, Codex, or Cursor session ends, the installed hook backgrounds `almanac capture`. Capture resolves the session transcript, builds the same Absorb operation used by `almanac ingest`, and starts a provider run through the process manager. The provider adapter decides how to express the requested prompt, tools, and future subagents for Claude, Codex, or Cursor.
 
 Capture writes nothing if nothing in the session meets the notability bar — silence is a valid outcome.
 
-No proposal files, no `--apply` step, no state machine between writer and reviewer. The changes land in `git status` and you commit them like anything else.
+No proposal files, no `--apply` step, no hardcoded reviewer/scout/researcher pipeline. The changes land in `git status` and you commit them like anything else.
 
 ### The notability bar
 
-Every repo's `.almanac/README.md` contains a notability bar: the threshold for what deserves a page. The default is "non-obvious knowledge that will help a future agent" — decisions that took research, gotchas discovered through failure, cross-cutting flows, constraints not visible in code. The writer consults the bar before writing; the reviewer enforces it. Edit the bar to match your repo's taste.
+Every repo's `.almanac/README.md` contains a notability bar: the threshold for what deserves a page. The default is "non-obvious knowledge that will help a future agent" — decisions that took research, gotchas discovered through failure, cross-cutting flows, constraints not visible in code. The operation prompt consults the bar before writing. Edit the bar to match your repo's taste.
 
 ### Archive vs edit
 
@@ -223,7 +225,10 @@ src/
 │   └── paths.ts        ← path normalization
 ├── registry/           ← global wiki registry (~/.almanac/registry.json)
 ├── topics/             ← topic DAG + frontmatter rewriting
-├── agent/              ← Claude Agent SDK integration
+├── harness/            ← provider-neutral run specs and provider adapters
+├── process/            ← local run records, logs, background jobs
+├── operations/         ← build, absorb, and garden operation specs
+├── agent/              ← provider setup/status helpers and prompt loading
 ├── paths.ts            ← find nearest .almanac/ (like git finds .git/)
 └── slug.ts             ← kebab-case canonicalization
 ```

package/dist/{agents-RVTQYE6A.js → agents-V2ZOIACP.js}

@@ -8,10 +8,11 @@ import {
   runDeprecatedSetDefaultAgent,
   runSetAgentModel,
   runSetDefaultAgent
-} from "./chunk-6BJUYZ43.js";
-import "./chunk-BGUID5BS.js";
-import "./chunk-P5WGG4FJ.js";
-import "./chunk-7JUX4ADQ.js";
+} from "./chunk-QIA22IAM.js";
+import "./chunk-RALBM6HZ.js";
+import "./chunk-FUBE6KCO.js";
+import "./chunk-5BWUMAOX.js";
+import "./chunk-IZT6RBHS.js";
 export {
   runAgentsDoctor,
   runAgentsList,
@@ -22,4 +23,4 @@ export {
   runSetAgentModel,
   runSetDefaultAgent
 };
-//# sourceMappingURL=agents-RVTQYE6A.js.map
+//# sourceMappingURL=agents-V2ZOIACP.js.map

package/dist/{chunk-P5WGG4FJ.js → chunk-5BWUMAOX.js}

@@ -3,7 +3,7 @@ import {
   findNearestAlmanacDir,
   getGlobalAlmanacDir,
   getRepoAlmanacDir
-} from "./chunk-7JUX4ADQ.js";
+} from "./chunk-IZT6RBHS.js";
 
 // src/update/config.ts
 import { existsSync } from "fs";
@@ -356,4 +356,4 @@ export {
   parseConfigText,
   serializeConfig
 };
-//# sourceMappingURL=chunk-P5WGG4FJ.js.map
+//# sourceMappingURL=chunk-5BWUMAOX.js.map

package/dist/chunk-5BWUMAOX.js.map

@@ -0,0 +1 @@
+{"version":3,"sources":["../src/update/config.ts"],"sourcesContent":["import { existsSync } from \"node:fs\";\nimport { mkdir, readFile, rename, writeFile } from \"node:fs/promises\";\nimport { dirname, join } from \"node:path\";\n\nimport {\n  findNearestAlmanacDir,\n  getGlobalAlmanacDir,\n  getRepoAlmanacDir,\n} from \"../paths.js\";\n\nexport const AGENT_PROVIDER_IDS = [\"claude\", \"codex\", \"cursor\"] as const;\nexport type AgentProviderId = (typeof AGENT_PROVIDER_IDS)[number];\n\nexport function isAgentProviderId(value: string): value is AgentProviderId {\n  return (AGENT_PROVIDER_IDS as readonly string[]).includes(value);\n}\n\nexport interface AgentConfig {\n  /** Default provider for agent-backed lifecycle commands. Default: \"claude\". */\n  default: AgentProviderId;\n  /** Optional per-provider model override. `null` means provider default. */\n  models: Partial<Record<AgentProviderId, string | null>>;\n}\n\n/**\n * `~/.almanac/config.toml` — global, cross-wiki configuration. Legacy\n * `config.json` is read and migrated forward on first normal access.\n *\n * Missing or malformed → defaults. Same tolerance as `UpdateState`:\n * the CLI must not be able to fail because this file drifted.\n */\nexport interface GlobalConfig {\n  /** When `false`, suppress the pre-command update-nag banner. Default: true. */\n  update_notifier: boolean;\n  /** Agent-provider settings for agent-backed lifecycle commands. */\n  agent: AgentConfig;\n}\n\nexport function defaultConfig(): GlobalConfig {\n  return {\n    update_notifier: true,\n    agent: {\n      default: \"claude\",\n      models: {\n        claude: null,\n        codex: null,\n        cursor: null,\n      },\n    },\n  };\n}\n\nexport function getConfigPath(): string {\n  return join(getGlobalAlmanacDir(), \"config.toml\");\n}\n\nexport function getLegacyConfigPath(): string {\n  return join(getGlobalAlmanacDir(), \"config.json\");\n}\n\nexport function getProjectConfigPath(cwd: string): string | null {\n  const repoRoot = findNearestAlmanacDir(cwd);\n  return repoRoot === null ? null : join(getRepoAlmanacDir(repoRoot), \"config.toml\");\n}\n\nexport type ConfigOrigin = \"default\" | \"user\" | \"project\";\n\nexport interface ConfigReadOptions {\n  path?: string;\n  cwd?: string;\n}\n\nexport interface ConfigReadResult {\n  config: GlobalConfig;\n  origins: Record<string, ConfigOrigin>;\n  raw: Record<string, unknown>;\n}\n\nexport async function readConfig(\n  input?: string | ConfigReadOptions,\n): Promise<GlobalConfig> {\n  return (await readConfigWithOrigins(input)).config;\n}\n\nexport async function readConfigWithOrigins(\n  input?: string | ConfigReadOptions,\n): Promise<ConfigReadResult> {\n  const opts = normalizeReadOptions(input);\n  if (opts.path !== undefined) {\n    const raw = await readRawConfigObject(opts.path);\n    return {\n      config: normalizeRawConfig(raw),\n      origins: originsFromRaw(raw, \"user\"),\n      raw,\n    };\n  }\n\n  const file = getConfigPath();\n  await migrateLegacyConfigIfNeeded(file);\n  const userRaw = await readRawConfigObject(file);\n  const mergedRaw = cloneJsonObject(userRaw);\n  const origins = originsFromRaw(userRaw, \"user\");\n  const projectPath = opts.cwd !== undefined ? getProjectConfigPath(opts.cwd) : null;\n  if (projectPath !== null) {\n    const projectRaw = await readRawConfigObject(projectPath);\n    applyProjectConfig(mergedRaw, projectRaw);\n    Object.assign(origins, originsFromRaw(projectRaw, \"project\", true));\n  }\n  return {\n    config: normalizeRawConfig(mergedRaw),\n    origins,\n    raw: mergedRaw,\n  };\n}\n\nfunction normalizeReadOptions(\n  input?: string | ConfigReadOptions,\n): ConfigReadOptions {\n  return typeof input === \"string\" ? { path: input } : input ?? {};\n}\n\nasync function migrateLegacyConfigIfNeeded(file: string): Promise<void> {\n  if (existsSync(file)) return;\n  const legacy = getLegacyConfigPath();\n  if (!existsSync(legacy)) return;\n  const raw = await readRawConfigObject(legacy);\n  if (Object.keys(raw).length === 0) return;\n  await writeConfig(normalizeRawConfig(raw), file);\n}\n\nfunction normalizeRawConfig(raw: Record<string, unknown>): GlobalConfig {\n  const defaults = defaultConfig();\n  const rawAgent =\n    raw.agent !== undefined &&\n    raw.agent !== null &&\n    typeof raw.agent === \"object\" &&\n    !Array.isArray(raw.agent)\n      ? (raw.agent as Partial<AgentConfig>)\n      : {};\n  const rawDefault =\n    typeof rawAgent.default === \"string\" &&\n    isAgentProviderId(rawAgent.default)\n      ? rawAgent.default\n      : defaults.agent.default;\n  const rawModels =\n    rawAgent.models !== undefined &&\n    rawAgent.models !== null &&\n    typeof rawAgent.models === \"object\" &&\n    !Array.isArray(rawAgent.models)\n      ? (rawAgent.models as Record<string, unknown>)\n      : {};\n  const models: Partial<Record<AgentProviderId, string | null>> = {\n    ...defaults.agent.models,\n  };\n  for (const id of AGENT_PROVIDER_IDS) {\n    const value = rawModels[id];\n    if (typeof value === \"string\" && value.length > 0) {\n      models[id] = value === \"default\" || value === \"null\" ? null : value;\n    } else if (value === null) {\n      models[id] = null;\n    }\n  }\n  return {\n    update_notifier:\n      typeof raw.update_notifier === \"boolean\"\n        ? raw.update_notifier\n        : defaults.update_notifier,\n    agent: {\n      default: rawDefault,\n      models,\n    },\n  };\n}\n\nfunction applyProjectConfig(\n  target: Record<string, unknown>,\n  projectRaw: Record<string, unknown>,\n): void {\n  const projectAgent =\n    projectRaw.agent !== null &&\n    typeof projectRaw.agent === \"object\" &&\n    !Array.isArray(projectRaw.agent)\n      ? projectRaw.agent as Record<string, unknown>\n      : {};\n  if (Object.keys(projectAgent).length === 0) return;\n  const targetAgent =\n    target.agent !== null &&\n    typeof target.agent === \"object\" &&\n    !Array.isArray(target.agent)\n      ? target.agent as Record<string, unknown>\n      : {};\n  target.agent = targetAgent;\n  if (typeof projectAgent.default === \"string\") {\n    targetAgent.default = projectAgent.default;\n  }\n  const projectModels =\n    projectAgent.models !== null &&\n    typeof projectAgent.models === \"object\" &&\n    !Array.isArray(projectAgent.models)\n      ? projectAgent.models as Record<string, unknown>\n      : {};\n  if (Object.keys(projectModels).length === 0) return;\n  const targetModels =\n    targetAgent.models !== null &&\n    typeof targetAgent.models === \"object\" &&\n    !Array.isArray(targetAgent.models)\n      ? targetAgent.models as Record<string, unknown>\n      : {};\n  targetAgent.models = targetModels;\n  for (const id of AGENT_PROVIDER_IDS) {\n    if (Object.prototype.hasOwnProperty.call(projectModels, id)) {\n      targetModels[id] = projectModels[id];\n    }\n  }\n}\n\nfunction originsFromRaw(\n  raw: Record<string, unknown>,\n  origin: ConfigOrigin,\n  agentOnly = false,\n): Record<string, ConfigOrigin> {\n  const origins: Record<string, ConfigOrigin> = {};\n  if (!agentOnly && Object.prototype.hasOwnProperty.call(raw, \"update_notifier\")) {\n    origins.update_notifier = origin;\n  }\n  const agent =\n    raw.agent !== null &&\n    typeof raw.agent === \"object\" &&\n    !Array.isArray(raw.agent)\n      ? raw.agent as Record<string, unknown>\n      : {};\n  if (Object.prototype.hasOwnProperty.call(agent, \"default\")) {\n    origins[\"agent.default\"] = origin;\n  }\n  const models =\n    agent.models !== null &&\n    typeof agent.models === \"object\" &&\n    !Array.isArray(agent.models)\n      ? agent.models as Record<string, unknown>\n      : {};\n  for (const id of AGENT_PROVIDER_IDS) {\n    if (Object.prototype.hasOwnProperty.call(models, id)) {\n      origins[`agent.models.${id}`] = origin;\n    }\n  }\n  return origins;\n}\n\nasync function readSingleConfig(file: string): Promise<GlobalConfig> {\n  let raw: string;\n  try {\n    raw = await readFile(file, \"utf8\");\n  } catch {\n    return defaultConfig();\n  }\n  const trimmed = raw.trim();\n  if (trimmed.length === 0) return defaultConfig();\n  try {\n    return normalizeRawConfig(parseConfigText(trimmed, file));\n  } catch {\n    return defaultConfig();\n  }\n}\n\nexport async function writeConfig(\n  config: GlobalConfig | Partial<GlobalConfig>,\n  path?: string,\n): Promise<void> {\n  const file = path ?? getConfigPath();\n  await mkdir(dirname(file), { recursive: true });\n  const current = await readSingleConfig(file);\n  const existingRaw = await readRawConfigObject(file);\n  const stored = toStoredConfigPatch(config, current, existingRaw);\n  const body = serializeConfig(stored, file);\n  const tmp = `${file}.tmp`;\n  await writeFile(tmp, body, \"utf8\");\n  await rename(tmp, file);\n}\n\nfunction normalizeConfig(config: GlobalConfig | Partial<GlobalConfig>): GlobalConfig {\n  const defaults = defaultConfig();\n  return {\n    update_notifier:\n      typeof config.update_notifier === \"boolean\"\n        ? config.update_notifier\n        : defaults.update_notifier,\n    agent: {\n      default:\n        config.agent !== undefined && isAgentProviderId(config.agent.default)\n          ? config.agent.default\n          : defaults.agent.default,\n      models: {\n        ...defaults.agent.models,\n        ...(config.agent?.models ?? {}),\n      },\n    },\n  };\n}\n\nasync function readRawConfigObject(\n  path: string,\n): Promise<Record<string, unknown>> {\n  try {\n    return parseConfigText(await readFile(path, \"utf8\"), path);\n  } catch {\n    // Fall through to empty.\n  }\n  return {};\n}\n\nexport function parseConfigText(\n  raw: string,\n  path = \"config.toml\",\n): Record<string, unknown> {\n  const trimmed = raw.trim();\n  if (trimmed.length === 0) return {};\n  if (path.endsWith(\".json\") || trimmed.startsWith(\"{\")) {\n    const parsed = JSON.parse(trimmed) as unknown;\n    return parsed !== null && typeof parsed === \"object\" && !Array.isArray(parsed)\n      ? parsed as Record<string, unknown>\n      : {};\n  }\n  return parseTomlConfig(trimmed);\n}\n\nexport function serializeConfig(\n  raw: Record<string, unknown>,\n  path = \"config.toml\",\n): string {\n  return path.endsWith(\".json\")\n    ? `${JSON.stringify(raw, null, 2)}\\n`\n    : serializeTomlConfig(raw);\n}\n\nfunction parseTomlConfig(raw: string): Record<string, unknown> {\n  const result: Record<string, unknown> = {};\n  let section: string[] = [];\n  for (const original of raw.split(/\\r?\\n/)) {\n    const line = stripTomlComment(original).trim();\n    if (line.length === 0) continue;\n    const sectionMatch = line.match(/^\\[([A-Za-z0-9_.-]+)\\]$/);\n    if (sectionMatch !== null) {\n      section = sectionMatch[1]!.split(\".\");\n      continue;\n    }\n    const eq = line.indexOf(\"=\");\n    if (eq === -1) continue;\n    const key = line.slice(0, eq).trim();\n    const value = parseTomlValue(line.slice(eq + 1).trim());\n    setObjectPath(result, [...section, key], value);\n  }\n  return result;\n}\n\nfunction serializeTomlConfig(raw: Record<string, unknown>): string {\n  const lines: string[] = [];\n  if (typeof raw.update_notifier === \"boolean\") {\n    lines.push(`update_notifier = ${raw.update_notifier ? \"true\" : \"false\"}`);\n  }\n  const agent =\n    raw.agent !== null &&\n    typeof raw.agent === \"object\" &&\n    !Array.isArray(raw.agent)\n      ? raw.agent as Record<string, unknown>\n      : {};\n  if (typeof agent.default === \"string\") {\n    if (lines.length > 0) lines.push(\"\");\n    lines.push(\"[agent]\");\n    lines.push(`default = ${tomlString(agent.default)}`);\n  }\n  const models =\n    agent.models !== null &&\n    typeof agent.models === \"object\" &&\n    !Array.isArray(agent.models)\n      ? agent.models as Record<string, unknown>\n      : {};\n  const modelLines: string[] = [];\n  for (const id of AGENT_PROVIDER_IDS) {\n    if (!Object.prototype.hasOwnProperty.call(models, id)) continue;\n    const value = models[id] === null ? \"default\" : models[id];\n    if (typeof value === \"string\" && value.length > 0) {\n      modelLines.push(`${id} = ${tomlString(value)}`);\n    }\n  }\n  if (modelLines.length > 0) {\n    if (lines.length > 0) lines.push(\"\");\n    lines.push(\"[agent.models]\", ...modelLines);\n  }\n  return `${lines.join(\"\\n\")}\\n`;\n}\n\nfunction stripTomlComment(line: string): string {\n  let inString = false;\n  let escaped = false;\n  for (let i = 0; i < line.length; i++) {\n    const ch = line[i];\n    if (escaped) {\n      escaped = false;\n      continue;\n    }\n    if (ch === \"\\\\\") {\n      escaped = true;\n      continue;\n    }\n    if (ch === \"\\\"\") inString = !inString;\n    if (ch === \"#\" && !inString) return line.slice(0, i);\n  }\n  return line;\n}\n\nfunction parseTomlValue(raw: string): string | boolean {\n  if (raw === \"true\") return true;\n  if (raw === \"false\") return false;\n  if (raw.startsWith(\"\\\"\") && raw.endsWith(\"\\\"\")) {\n    return JSON.parse(raw) as string;\n  }\n  return raw;\n}\n\nfunction tomlString(value: string): string {\n  return JSON.stringify(value);\n}\n\nfunction setObjectPath(\n  raw: Record<string, unknown>,\n  path: string[],\n  value: string | boolean,\n): void {\n  let cursor = raw;\n  for (const part of path.slice(0, -1)) {\n    const next = cursor[part];\n    if (next === null || typeof next !== \"object\" || Array.isArray(next)) {\n      cursor[part] = {};\n    }\n    cursor = cursor[part] as Record<string, unknown>;\n  }\n  const leaf = path[path.length - 1];\n  if (leaf !== undefined) cursor[leaf] = value;\n}\n\nfunction toStoredConfigPatch(\n  config: GlobalConfig | Partial<GlobalConfig>,\n  current: GlobalConfig,\n  raw: Record<string, unknown>,\n): Record<string, unknown> {\n  const normalized = normalizeConfig(config);\n  const defaults = defaultConfig();\n  const stored = cloneJsonObject(raw);\n\n  if (\n    config.update_notifier !== undefined &&\n    normalized.update_notifier !== current.update_notifier\n  ) {\n    setStoredValue(\n      stored,\n      [\"update_notifier\"],\n      normalized.update_notifier,\n      defaults.update_notifier,\n    );\n  }\n\n  if (config.agent !== undefined) {\n    if (\n      config.agent.default !== undefined &&\n      normalized.agent.default !== current.agent.default\n    ) {\n      setStoredValue(\n        stored,\n        [\"agent\", \"default\"],\n        normalized.agent.default,\n        defaults.agent.default,\n      );\n    }\n\n    const inputModels = config.agent.models ?? {};\n    for (const id of AGENT_PROVIDER_IDS) {\n      if (!Object.prototype.hasOwnProperty.call(inputModels, id)) continue;\n      const value = normalized.agent.models[id] ?? null;\n      const currentValue = current.agent.models[id] ?? null;\n      const defaultValue = defaults.agent.models[id] ?? null;\n      if (value !== currentValue) {\n        setStoredValue(stored, [\"agent\", \"models\", id], value, defaultValue);\n      }\n    }\n  }\n  pruneEmptyObjects(stored);\n  return stored;\n}\n\nfunction setStoredValue(\n  raw: Record<string, unknown>,\n  path: string[],\n  value: string | boolean | null,\n  defaultValue: string | boolean | null,\n): void {\n  let cursor = raw;\n  for (const part of path.slice(0, -1)) {\n    const next = cursor[part];\n    if (next === null || typeof next !== \"object\" || Array.isArray(next)) {\n      cursor[part] = {};\n    }\n    cursor = cursor[part] as Record<string, unknown>;\n  }\n  const leaf = path[path.length - 1];\n  if (leaf === undefined) return;\n  cursor[leaf] = value;\n  if (value !== defaultValue) return;\n  // Keep explicit defaults only when the caller changed the value to the\n  // default. Unchanged explicit defaults are preserved by cloning `raw`.\n}\n\nfunction cloneJsonObject(raw: Record<string, unknown>): Record<string, unknown> {\n  return JSON.parse(JSON.stringify(raw)) as Record<string, unknown>;\n}\n\nfunction pruneEmptyObjects(raw: Record<string, unknown>): void {\n  for (const [key, value] of Object.entries(raw)) {\n    if (value === null || typeof value !== \"object\" || Array.isArray(value)) {\n      continue;\n    }\n    pruneEmptyObjects(value as Record<string, unknown>);\n    if (Object.keys(value).length === 0) delete raw[key];\n  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