agents-inc 0.165.0 → 0.166.0

package/dist/commands/doctor.js.map

@@ -1 +1 @@
-{"version":3,"sources":["../../src/cli/commands/doctor.ts","../../src/cli/lib/installation/layout-findings.ts","../../src/cli/lib/source-validator.ts","../../src/cli/lib/content-validator.ts"],"sourcesContent":["import os from \"os\";\nimport path from \"path\";\nimport { BaseCommand } from \"../base-command\";\nimport { getErrorMessage } from \"../utils/errors\";\nimport { EXIT_CODES } from \"../lib/exit-codes\";\nimport {\n  effectivelyExcludedSkillIds,\n  findConfigLoadFailures,\n  loadInstalledConfig,\n  validateProjectConfig,\n  SOURCE_ENV_VAR,\n  type ResolvedConfig,\n} from \"../lib/configuration\";\nimport { loadSource, detectProject, type DetectedProject } from \"../lib/operations\";\nimport { matrix } from \"../lib/matrix/matrix-provider\";\nimport { discoverLocalSkills } from \"../lib/skills\";\nimport { getStackSkillIds } from \"../lib/stacks\";\nimport { filterExcludedEntries, listAgentFilesOf } from \"../lib/agents\";\nimport { getVerifiedPluginInstallPaths, parseMarketplacePluginRef } from \"../lib/plugins\";\nimport {\n  declaresNoContent,\n  isHomeDirectory,\n  installBaseDir,\n  resolveInstallPaths,\n} from \"../lib/installation\";\nimport {\n  agentCodec,\n  type AgentCodec,\n  hostCompilesAgent,\n  providerInUse,\n  relativeConfigPath,\n  resolveSourceDir,\n  skillsDir,\n  skillsPathPrefix,\n} from \"../lib/installation/install-layout\";\nimport { ambiguityFinding } from \"../lib/installation/provider-flag\";\nimport { unofferablePlacementsFound } from \"../lib/hosts/configured-placements\";\nimport { sourceScopesInPlay, type ScopeKind } from \"../lib/installation/source-scopes\";\nimport { layoutFindingFor, type LayoutFinding } from \"../lib/installation/layout-findings\";\nimport {\n  REGISTRY_IS_NOT_AN_INVENTORY,\n  recreateConfigFrom,\n  scopeLabel,\n  scopeNoun,\n} from \"../utils/messages\";\nimport { getInstalledConfigPath } from \"../lib/installation/install-base-dir\";\nimport { isSourceRepo } from \"../lib/source-validator\";\nimport {\n  listInstalledArtifacts,\n  validateInstalledAgents,\n  validateInstalledPlugins,\n  validateInstalledSkills,\n  validateProjectConfigFile,\n  validateRegisteredSources,\n  type ContentIssue,\n  type ContentValidation,\n} from \"../lib/content-validator\";\nimport type { SourceLoadResult } from \"../lib/loading\";\nimport type {\n  AgentName,\n  AgentScopeConfig,\n  MergedSkillsMatrix,\n  ProjectConfig,\n  SkillConfig,\n  SkillId,\n  SkillScope,\n} from \"../types\";\nimport { fileExists, directoryExists } from \"../utils/fs\";\nimport { plural } from \"../utils/string\";\nimport {\n  CLI_INVOKE_COMMAND,\n  DEFAULT_BRANDING,\n  EJECT_SOURCE,\n  STANDARD_FILES,\n  UI_SYMBOLS,\n  type Provider,\n} from \"../consts\";\nimport { countBy, unique } from \"remeda\";\n\ntype CheckKind =\n  | \"config\"\n  | \"config-empty\"\n  | \"layout\"\n  | \"placements\"\n  | \"skills\"\n  | \"agents\"\n  | \"orphans\"\n  | \"orphans-unowned\"\n  | \"installed\"\n  | \"plugins\"\n  | \"source\"\n  | \"content-config\"\n  | \"content-sources\"\n  | \"content-plugins\"\n  | \"content-skills\"\n  | \"content-agents\";\n\ntype CheckResult = {\n  kind: CheckKind;\n  status: \"pass\" | \"fail\" | \"warn\" | \"skip\";\n  message: string;\n  details?: string[];\n};\n\ntype ConfigCheckOutput = {\n  result: CheckResult;\n  config: ProjectConfig | null;\n};\n\n/**\n * Which state the config these rows describe is in. `detectInstallation` answers \"is there an\n * installation here\", not \"is there a config here\", and hands back the same `null` for an absent\n * file and for one that loads while declaring neither skills nor agents — two states that need\n * different sentences. The state missing from this union is the one that cannot reach this layer:\n * a config that cannot be READ is the content layer's finding, and it skips the operational layer.\n *\n * A loaded config says whether it is this directory's own or the global one it inherits: a\n * directory with no config of its own under a global installation reads the global config, and a\n * row naming this directory's path for it describes a file that is not there.\n */\ntype ConfigState =\n  | { kind: \"absent\" }\n  | { kind: \"declares-nothing\"; config: ProjectConfig }\n  | { kind: \"loaded\"; config: ProjectConfig; inherited: boolean };\n\n/**\n * The config in THIS directory, and what state it is in. Only this directory: the global fallback\n * is `detectInstallation`'s to make and it has already made it, so a project with no config of its\n * own is absent here whatever the home directory holds — `init` writes exactly the declares-nothing\n * shape as the blank global pair on every project setup, and it is not this project's config.\n *\n * The load cannot throw: `configDirsInPlay` is the same set the content layer just read, and any\n * failure in it skipped this layer entirely.\n */\nasync function resolveConfigState(\n  detected: DetectedProject | null,\n  projectDir: string,\n): Promise<ConfigState> {\n  if (detected?.config) {\n    return {\n      kind: \"loaded\",\n      config: detected.config,\n      inherited: inheritsTheGlobalConfig(detected.installation.projectDir, projectDir),\n    };\n  }\n\n  const loaded = await loadInstalledConfig(projectDir);\n  if (!loaded) return { kind: \"absent\" };\n\n  return declaresNoContent(loaded.config)\n    ? { kind: \"declares-nothing\", config: loaded.config }\n    : { kind: \"loaded\", config: loaded.config, inherited: false };\n}\n\n/** Whether the config detection read for `projectDir` is the home directory's, inherited. */\nfunction inheritsTheGlobalConfig(readFrom: string, projectDir: string): boolean {\n  return isHomeDirectory(readFrom) && !isHomeDirectory(projectDir);\n}\n\n/**\n * `projectDir` rather than a module-level constant for the path this reports about: a scope's\n * source folder is resolved from disk, so nothing about it exists at module load, and every line\n * below has to name the folder this project is ACTUALLY on. A constant would tell a user on the\n * old name to go and edit a file that is not there.\n */\nfunction checkConfigValid(state: ConfigState, projectDir: string): ConfigCheckOutput {\n  const theConfig = (verdict: string) => configRowMessage(state, projectDir, verdict);\n  if (state.kind === \"absent\") {\n    return {\n      result: {\n        kind: \"config\",\n        status: \"fail\",\n        message: theConfig(\"not found\"),\n        details: [`Run '${CLI_INVOKE_COMMAND} init' to create a configuration`],\n      },\n      config: null,\n    };\n  }\n\n  // Not a fault and nothing to repair — the file is valid, it just has nothing in it. The config\n  // is still handed on: the rows below describe an empty install truthfully, where a `null` would\n  // have them all report `Skipped (config invalid)` about a config that is valid.\n  if (state.kind === \"declares-nothing\") {\n    return {\n      result: {\n        kind: \"config-empty\",\n        status: \"warn\",\n        message: theConfig(\"is valid but declares no skills and no agents\"),\n      },\n      config: state.config,\n    };\n  }\n\n  const { config } = state;\n  const validation = validateProjectConfig(config);\n\n  if (!validation.valid) {\n    return {\n      result: {\n        kind: \"config\",\n        status: \"fail\",\n        message: theConfig(\"has errors\"),\n        details: validation.errors,\n      },\n      config: null,\n    };\n  }\n\n  if (validation.warnings.length > 0) {\n    return {\n      result: {\n        kind: \"config\",\n        status: \"warn\",\n        message: theConfig(\"has warnings\"),\n        details: validation.warnings,\n      },\n      config,\n    };\n  }\n\n  return {\n    result: {\n      kind: \"config\",\n      status: \"pass\",\n      message: theConfig(\"is valid\"),\n    },\n    config,\n  };\n}\n\n/**\n * What a Config Valid row says, led by whose config it is: this project's, or the global\n * installation's — the nouns the Layout rows lead with.\n *\n * A directory with no config of its own under a global installation reads the global one, and the\n * row says so, naming the file it actually read rather than this directory's path for a file that\n * is not there.\n */\nfunction configRowMessage(state: ConfigState, projectDir: string, verdict: string): string {\n  if (state.kind === \"loaded\" && state.inherited)\n    return `${theInheritedConfig()}, which ${verdict}`;\n  return `${theOwnConfig(projectDir)} ${verdict}`;\n}\n\n/** `This project: .agents-inc/claude/config.ts`, or the global installation's from home. */\nfunction theOwnConfig(projectDir: string): string {\n  return `${scopeLabel(scopeOf(projectDir))}: ${configNamedFrom(projectDir)}`;\n}\n\n/** A project with no config of its own, and the global one it reads in its place. */\nfunction theInheritedConfig(): string {\n  return `${scopeLabel(\"project\")}: no ${STANDARD_FILES.CONFIG_TS}, using ${scopeNoun(\"global\")}'s (${configNamedFrom(os.homedir())})`;\n}\n\n/** The scope whose config a directory holds: the home directory's is the global one. */\nfunction scopeOf(dir: string): ScopeKind {\n  return isHomeDirectory(dir) ? \"global\" : \"project\";\n}\n\n/**\n * A config file as a row names it: relative to the project it belongs to, and from home for the\n * global one — named relative to a project, the global config is a file that project does not have.\n */\nfunction configNamedFrom(root: string): string {\n  const relPath = relativeConfigPath(root, providerInUse(root));\n  return isHomeDirectory(root) ? `~/${relPath}` : relPath;\n}\n\nasync function checkSkillsResolved(\n  config: ProjectConfig,\n  matrix: MergedSkillsMatrix,\n  projectDir: string,\n): Promise<CheckResult> {\n  // config.ts declares skills both directly and through the stack. A global-only\n  // install has a populated skills array and no stack at all, so keying this check\n  // off the stack alone would report \"No skills configured\" for a real install.\n  const excludedIds = effectivelyExcludedSkillIds(config.skills);\n  const stackIds = config.stack ? getStackSkillIds(config.stack) : [];\n  const uniqueSkills = unique([...stackIds, ...config.skills.map((s) => s.id)]).filter(\n    (id) => !excludedIds.has(id),\n  );\n\n  if (uniqueSkills.length === 0) {\n    return {\n      kind: \"skills\",\n      status: \"pass\",\n      message: \"No skills configured\",\n    };\n  }\n\n  const [localResult, globalResult] = await Promise.all([\n    discoverLocalSkills(projectDir),\n    !isHomeDirectory(projectDir) ? discoverLocalSkills(os.homedir()) : null,\n  ]);\n  const localSkillIds = new Set([\n    ...(localResult?.skills.map((s) => s.id) ?? []),\n    ...(globalResult?.skills.map((s) => s.id) ?? []),\n  ]);\n\n  const missingSkills = uniqueSkills.filter(\n    (skillId) => !(skillId in matrix.skills) && !localSkillIds.has(skillId),\n  );\n\n  if (missingSkills.length > 0) {\n    return {\n      kind: \"skills\",\n      status: \"fail\",\n      message: `${ratio(uniqueSkills.length - missingSkills.length, uniqueSkills.length, \"skill\")} found`,\n      details: missingSkills.map((s) => `- ${s} (not found)`),\n    };\n  }\n\n  return {\n    kind: \"skills\",\n    status: \"pass\",\n    message: `${ratio(uniqueSkills.length, uniqueSkills.length, \"skill\")} found`,\n  };\n}\n\n/**\n * Whether every configured sub-agent is compiled where its own host reads it.\n *\n * **Two things here were Claude's and are the host's**, and both were found by running the\n * command on a healthy Codex installation rather than by reading it:\n *\n * - the FILENAME was `${name}.md`. Claude reads `.md` and Codex reads `.toml`, so on Codex this\n *   looked for a file no release will ever write. {@link agentCodec} answers the extension, and\n *   this is the extension ban's own census in action — the eslint config leaves `.md` unbanned\n *   precisely because product modules like this one still spell it.\n * - the VERDICT was \"needs recompilation\", for a sub-agent {@link hostCompilesAgent} says this\n *   host does not carry at all. Recompiling writes nothing, so the row asked for a remedy that\n *   does not exist and turned an install working exactly as this release intends into a warning.\n *   With C5 that is no longer a whole provider but two named sub-agents — `agent-summoner` and\n *   `skill-summoner`, which Codex leaves out for v1 — so the row names them rather than the host.\n *\n * The host is read per SCOPE, the way `resolveInstallPaths` reads it beside this: two scopes can\n * be on two providers, and one answer for both is how a row reports about the wrong installation.\n */\nasync function checkAgentsCompiled(\n  config: ProjectConfig,\n  projectDir: string,\n): Promise<CheckResult> {\n  const agents = config.agents;\n\n  if (agents.length === 0) {\n    return {\n      kind: \"agents\",\n      status: \"pass\",\n      message: \"No agents configured\",\n    };\n  }\n\n  const hosts = {\n    global: providerInUse(installBaseDir(projectDir, \"global\")),\n    project: providerInUse(installBaseDir(projectDir, \"project\")),\n  };\n  const dirs = {\n    global: resolveInstallPaths(projectDir, \"global\").agentsDir,\n    project: resolveInstallPaths(projectDir, \"project\").agentsDir,\n  };\n\n  const agentChecks = await Promise.all(\n    agents.map((agent) => agentCompileCheck(agent, hosts, dirs)),\n  );\n\n  const unrenderable = agentChecks.filter((c) => c.state === \"unrenderable\");\n  const missingAgents = agentChecks.filter((c) => c.state === \"missing\").map((c) => c.name);\n\n  // The no-renderer answer leads when it is the whole story, because then nothing is wrong and\n  // nothing can be done: a `warn` here would make every `doctor` on a Codex installation read as\n  // a fault report about the one thing this release has already said it does not do yet. The\n  // providers come off the rows themselves rather than off both scopes, so a project on one host\n  // under a global on another names only the host whose sub-agents this is about.\n  if (unrenderable.length === agents.length) {\n    const hostsLeavingThemOut = unique(unrenderable.map((a) => a.provider)).join(\" or \");\n    return {\n      kind: \"agents\",\n      status: \"pass\",\n      message: `No sub-agent in this configuration is carried by ${hostsLeavingThemOut}`,\n      details: unrenderable.map((a) => `- ${a.name} (left out of ${a.provider})`),\n    };\n  }\n\n  if (missingAgents.length > 0) {\n    return {\n      kind: \"agents\",\n      status: \"warn\",\n      message: `${missingAgents.length} agent${missingAgents.length === 1 ? \"\" : \"s\"} need${missingAgents.length === 1 ? \"s\" : \"\"} recompilation`,\n      details: missingAgents.map((a) => `- ${a} (missing)`),\n    };\n  }\n\n  const renderable = agents.length - unrenderable.length;\n  return {\n    kind: \"agents\",\n    status: \"pass\",\n    message: `${ratio(renderable, renderable, \"agent\")} compiled`,\n  };\n}\n\n/** One configured sub-agent as the Agents Compiled row sees it, and the host that decided it. */\ntype AgentCompileCheck = {\n  name: AgentName;\n  provider: Provider;\n  state: \"unrenderable\" | \"compiled\" | \"missing\";\n};\n\n/**\n * Whether one sub-agent is left out by its scope's host, or else compiled or missing where that\n * host reads it — the extension and the directory are both the host's.\n */\nasync function agentCompileCheck(\n  agent: AgentScopeConfig,\n  hosts: Record<SkillScope, Provider>,\n  agentsDirs: Record<SkillScope, string>,\n): Promise<AgentCompileCheck> {\n  const provider = hosts[agent.scope];\n  if (!hostCompilesAgent(provider, agent.name)) {\n    return { name: agent.name, provider, state: \"unrenderable\" };\n  }\n\n  const file = `${agent.name}${agentCodec(provider).extension}`;\n  const compiled = await fileExists(path.join(agentsDirs[agent.scope], file));\n  return { name: agent.name, provider, state: compiled ? \"compiled\" : \"missing\" };\n}\n\nasync function checkNoOrphans(config: ProjectConfig, projectDir: string): Promise<CheckResult> {\n  // The host's own agent files — `*.toml` roles on Codex, where a `*.md`-only listing found no\n  // compiled agent and so no orphan either (the CLI-896 class, 2026-09-27).\n  const codec = agentCodec(providerInUse(projectDir));\n  const projectAgentsDir = resolveInstallPaths(projectDir, \"project\").agentsDir;\n  const globalAgentsDir = resolveInstallPaths(projectDir, \"global\").agentsDir;\n\n  // At home scope both scopes resolve to the same agents directory, so it is\n  // listed once and its files are matched against both scopes' known names.\n  const scopesShareAgentsDir = isHomeDirectory(projectDir);\n\n  const [projectExists, globalExists] = await Promise.all([\n    directoryExists(projectAgentsDir),\n    !scopesShareAgentsDir ? directoryExists(globalAgentsDir) : false,\n  ]);\n\n  if (!projectExists && !globalExists) {\n    return {\n      kind: \"orphans\",\n      status: \"pass\",\n      message: \"No agents directory\",\n    };\n  }\n\n  const projectMdFiles = projectExists ? await listAgentFilesOf(projectAgentsDir, codec) : [];\n  const globalMdFiles = globalExists ? await listAgentFilesOf(globalAgentsDir, codec) : [];\n\n  // Project files: only active project-scoped agents should have .md files here\n  const activeProjectAgents: Set<string> = new Set(\n    config.agents.filter((a) => a.scope === \"project\" && !a.excluded).map((a) => a.name),\n  );\n  // Global files: all global-scoped agents (including excluded) still serve other projects\n  const knownGlobalAgents: Set<string> = new Set(\n    config.agents.filter((a) => a.scope === \"global\").map((a) => a.name),\n  );\n\n  const knownProjectDirAgents = scopesShareAgentsDir\n    ? new Set([...activeProjectAgents, ...knownGlobalAgents])\n    : activeProjectAgents;\n\n  const orphanedFiles = [\n    ...orphanedAgentNames(projectMdFiles, knownProjectDirAgents, codec),\n    ...orphanedAgentNames(globalMdFiles, knownGlobalAgents, codec),\n  ];\n\n  if (orphanedFiles.length > 0) {\n    return {\n      kind: \"orphans\",\n      status: \"warn\",\n      message: plural(orphanedFiles.length, \"orphaned agent file\"),\n      details: orphanedFiles.map((f) => `- ${f}.md (not in config)`),\n    };\n  }\n\n  return {\n    kind: \"orphans\",\n    status: \"pass\",\n    message: \"No orphaned agent files\",\n  };\n}\n\n/**\n * The agents whose compiled `.md` sits in a directory whose roster does not name them. The\n * roster differs per directory — a project directory knows only its own active agents, the\n * global one knows every global-scoped agent including the excluded — so it is a parameter.\n */\nfunction orphanedAgentNames(\n  mdFiles: string[],\n  knownAgents: ReadonlySet<string>,\n  codec: AgentCodec,\n): string[] {\n  return mdFiles\n    .map((fileName) => path.basename(fileName, codec.extension))\n    .filter((agentName) => !knownAgents.has(agentName));\n}\n\n/**\n * The same row when there is no configuration at all. Ownership is not unknown here, it is\n * settled: nothing declares any of it, so every artefact this CLI can prove it wrote is an\n * orphan and the row names it. What it CANNOT prove it wrote is left out — a skill directory\n * with no `forkedFrom` and an agent file with no provenance marker are somebody's own work,\n * and naming them here would offer `uninstall` files that command declines. See\n * {@link listInstalledArtifacts}, which asks exactly that question on both axes.\n *\n * A `fail`, where a stray file beside a config is a warning: that warning is earned by the next\n * `compile` pruning what it names, and nothing prunes these unattended. `compile` and `edit`\n * refuse without a config; `uninstall` does not need one, identifying skill directories by\n * their own `forkedFrom` and compiled agents by the marker each carries, which is why the tip\n * beneath this row can promise both halves.\n *\n * With nothing installed the row keeps the skip it has always printed. An empty directory with\n * no config is the state `init` exists for — there is nothing for a configuration to have owned.\n */\nasync function checkUnownedInstallation(projectDir: string): Promise<CheckResult> {\n  const { skills, agents } = await listInstalledArtifacts(projectDir);\n  if (skills.length === 0 && agents.length === 0) return skippedResult(\"orphans\");\n\n  return {\n    kind: \"orphans-unowned\",\n    status: \"fail\",\n    // The per-line \"(not in config)\" the other verdict repeats is said once here instead:\n    // with no configuration it is true of every line, and there are as many lines as files.\n    message: `${countedArtifacts(skills, agents)} installed here, and no configuration declares them`,\n    details: [...skills, ...agents].map((artifact) => `- ${artifact}`),\n  };\n}\n\n/** \"1/1 skill\", \"2/3 skills\" — the noun agrees with the count it is out of. */\nfunction ratio(found: number, total: number, noun: string): string {\n  return `${found}/${plural(total, noun)}`;\n}\n\n/** \"7 skills and 2 agents\", dropping a half with nothing in it rather than saying \"0 agents\". */\nfunction countedArtifacts(skills: string[], agents: string[]): string {\n  return [\n    ...(skills.length > 0 ? [plural(skills.length, \"skill\")] : []),\n    ...(agents.length > 0 ? [plural(agents.length, \"agent\")] : []),\n  ].join(\" and \");\n}\n\n/**\n * Whether every eject-mode skill the configuration names is on disk where its own host reads it.\n *\n * **It composed `<scope root>/.claude/skills/<id>/SKILL.md` for every provider until\n * 2026-09-22**, which made a healthy Codex installation report every one of its skills missing\n * and told the reader to look in a directory that installation does not have. The write path had\n * already moved through the layout — `copyLocalSkills` writes `$CODEX_HOME/skills` and\n * `<repo>/.agents/skills` — so this row was the half that stayed behind, and it is the kind of\n * defect the host-path lint ban cannot report: the path was composed from a CONSTANT, and that\n * ban matches literals.\n *\n * The directory is asked per SKILL rather than once for the row, because scope decides it and a\n * configuration mixes scopes freely. The reader is told the directory that was actually looked\n * in, for the same reason — one sentence naming one folder cannot be true of two scopes on two\n * different hosts.\n */\nasync function checkSkillsInstalled(\n  config: ProjectConfig,\n  projectDir: string,\n): Promise<CheckResult> {\n  const skills: SkillConfig[] = config.skills;\n  const ejectSkills = skills.filter((s) => s.origin === EJECT_SOURCE);\n\n  if (ejectSkills.length === 0) {\n    return {\n      kind: \"installed\",\n      status: \"pass\",\n      message: \"No eject-mode skills configured\",\n    };\n  }\n\n  const skillChecks = await Promise.all(\n    ejectSkills.map((skill) => ejectedSkillCheck(skill, projectDir)),\n  );\n  const missingSkills = skillChecks.filter((c) => !c.installed);\n\n  if (missingSkills.length > 0) {\n    return {\n      kind: \"installed\",\n      status: \"warn\",\n      message: `${plural(missingSkills.length, \"skill\")} missing from disk`,\n      details: missingSkills.map((s) => `- ${s.id} (not found in ${s.lookedIn}/)`),\n    };\n  }\n\n  return {\n    kind: \"installed\",\n    status: \"pass\",\n    message: `${ratio(ejectSkills.length, ejectSkills.length, \"eject-mode skill\")} installed`,\n  };\n}\n\n/** One eject-mode skill as the Skills Installed row sees it, and where it was looked for. */\ntype EjectedSkillCheck = { id: SkillId; installed: boolean; lookedIn: string };\n\n/**\n * Whether one eject-mode skill's `SKILL.md` is where its scope's host reads it.\n *\n * The provider is read off the scope's OWN root, the way `resolveInstallPaths` and\n * `discoverLocalProjectSkills` read it: two scopes can be on two different providers, and one\n * probe per skill is what keeps the directory and the reported prefix naming one of them.\n */\nasync function ejectedSkillCheck(\n  skill: SkillConfig,\n  projectDir: string,\n): Promise<EjectedSkillCheck> {\n  const provider = providerInUse(installBaseDir(projectDir, skill.scope));\n  const dir = skillsDir(provider, skill.scope, projectDir);\n  const installed = await fileExists(path.join(dir, skill.id, STANDARD_FILES.SKILL_MD));\n\n  return {\n    id: skill.id,\n    installed,\n    lookedIn: skillsPathPrefix(provider, skill.scope, projectDir),\n  };\n}\n\n/**\n * Plugin-mode skills have no files under `.claude/skills/` — they live in the\n * Claude plugin registry. Verifying them means asking the registry for the scope\n * each skill was installed at, not looking on disk.\n */\nasync function checkPluginSkillsInstalled(\n  config: ProjectConfig,\n  projectDir: string,\n): Promise<CheckResult> {\n  const pluginSkills: SkillConfig[] = config.skills.filter((s) => s.origin !== EJECT_SOURCE);\n\n  if (pluginSkills.length === 0) {\n    return {\n      kind: \"plugins\",\n      status: \"pass\",\n      message: \"No plugin-mode skills configured\",\n    };\n  }\n\n  const baseDirs = unique(pluginSkills.map((s) => installBaseDir(projectDir, s.scope)));\n  const missingPerBaseDir = await Promise.all(\n    baseDirs.map(async (baseDir) => {\n      const installedIds = new Set(\n        (await getVerifiedPluginInstallPaths(baseDir)).map((plugin) =>\n          parseMarketplacePluginRef(plugin.pluginKey),\n        ),\n      );\n      return pluginSkills\n        .filter((skill) => installBaseDir(projectDir, skill.scope) === baseDir)\n        .filter((skill) => !installedIds.has(skill.id))\n        .map((skill) => skill.id);\n    }),\n  );\n  const missingSkills = missingPerBaseDir.flat();\n\n  if (missingSkills.length > 0) {\n    return {\n      kind: \"plugins\",\n      status: \"warn\",\n      message: `${plural(missingSkills.length, \"skill\")} not installed as plugins`,\n      details: missingSkills.map((s) => `- ${s} (no enabled plugin found)`),\n    };\n  }\n\n  return {\n    kind: \"plugins\",\n    status: \"pass\",\n    message: `${ratio(pluginSkills.length, pluginSkills.length, \"plugin-mode skill\")} installed`,\n  };\n}\n\n/**\n * How a marketplace came to be the one this run reads, in the words each rung earns.\n *\n * The `default` sentence is the one that had to exist. With no configuration anywhere the resolver\n * falls back to the public catalogue and this check FETCHES it, so the report a bare directory gets\n * describes a network round trip to a marketplace nobody named — which is the row doing its job,\n * since reachability is its whole subject, and it was doing it without saying so. The other four\n * rungs are here because the map is exhaustive against the union rather than a default with\n * exceptions; `doctor` takes no marketplace flag and reads no environment variable, so it reaches\n * the first two through nothing today.\n */\nconst MARKETPLACE_CHOSEN_BY = {\n  flag: \"named by this run\",\n  env: `named by ${SOURCE_ENV_VAR}`,\n  project: \"named by this project's configuration\",\n  global: \"named by the global configuration\",\n  default: \"nothing here names one, so this is the default\",\n} as const satisfies Record<ResolvedConfig[\"sourceOrigin\"], string>;\n\n/** How this run got hold of that marketplace — off disk, or over the wire. */\nfunction howItWasReached(source: string, isLocal: boolean): string {\n  return isLocal ? `Read ${source} from disk` : `Fetched ${source} over the network`;\n}\n\n/**\n * The row for a marketplace this run did reach.\n *\n * `message` names where the skills were read FROM, which for a remote marketplace is the cache\n * directory it was unpacked into; the provenance line beneath it names the marketplace itself.\n * Both, because neither answers the other's question: a cache path says nothing about whose\n * catalogue it holds, and a ref says nothing about what is on disk to inspect.\n *\n * The count is what that marketplace carries, not the matrix this run loaded: the matrix also\n * holds the skills ejected here and the global installation's, which may come from another\n * marketplace altogether.\n */\nfunction reachedMarketplace(result: SourceLoadResult): CheckResult {\n  const { source, sourceOrigin } = result.sourceConfig;\n  const skillCount = result.marketplaceSkillIds.size;\n  const sourceLabel = result.isLocal ? \"local\" : \"remote\";\n\n  return {\n    kind: \"source\",\n    status: \"pass\",\n    message: `Connected to ${sourceLabel}: ${result.sourcePath}`,\n    details: [\n      `${plural(skillCount, \"skill\")} available`,\n      `${howItWasReached(source, result.isLocal)} — ${MARKETPLACE_CHOSEN_BY[sourceOrigin]}`,\n    ],\n  };\n}\n\nasync function checkSourceReachable(projectDir: string): Promise<CheckResult> {\n  try {\n    const { sourceResult } = await loadSource({ projectDir });\n    return reachedMarketplace(sourceResult);\n  } catch (error) {\n    const message = getErrorMessage(error);\n    return {\n      kind: \"source\",\n      status: \"fail\",\n      message: \"Failed to load marketplace\",\n      details: [message],\n    };\n  }\n}\n\ntype ContentCheck = {\n  kind: CheckKind;\n  name: string;\n  noun: string;\n  run: (projectDir: string) => Promise<ContentValidation>;\n};\n\n/**\n * A content check plus the two gates it owns: whether it reads config.ts to know WHAT to validate\n * (see {@link CONFIG_CHECK}), and which operational rows its errors stand down.\n *\n * `blocks` names only the rows that READ what this pass validates, so their own verdict would be\n * this pass's finding in the row's words. A row absent from every `blocks` list reads none of the\n * content on disk and answers as truthfully as ever — an error here is not its business.\n */\ntype GatedContentCheck = ContentCheck & {\n  readsConfig: boolean;\n  blocks: readonly CheckKind[];\n};\n\n/**\n * The config file every other check is read against, so it is validated before any of them and\n * on its own: a file that exists and cannot be parsed is a finding about that file, and every\n * row underneath would be a cascade of it. It carries no gate of its own — it IS the gate.\n */\nconst CONFIG_CHECK: ContentCheck = {\n  kind: \"content-config\",\n  name: \"Config\",\n  noun: \"config\",\n  run: validateProjectConfigFile,\n};\n\n/**\n * The content layer: schema and file-level validation of what is on disk. It runs before the\n * operational layer so that a row whose inputs this layer has already reported broken can stand\n * down rather than re-report the same fault as a finding of its own.\n */\nconst CONTENT_CHECKS: GatedContentCheck[] = [\n  {\n    kind: \"content-sources\",\n    name: \"Marketplaces\",\n    noun: \"marketplace\",\n    // The registered marketplaces are the ones config.ts names.\n    readsConfig: true,\n    // A marketplace whose content is broken is missing skills from the matrix every configured\n    // id is resolved against, so the skills row would call ids \"not found\" that this row has\n    // already accounted for.\n    blocks: [\"skills\"],\n    run: validateRegisteredSources,\n  },\n  {\n    kind: \"content-plugins\",\n    name: \"Plugins\",\n    noun: \"plugin\",\n    readsConfig: false,\n    // `resolvePluginInstallPaths` swallows a registry it cannot parse and returns none, so every\n    // plugin-mode skill would read \"no enabled plugin found\" — the registry's finding, once per\n    // configured skill, wearing the row's words.\n    blocks: [\"plugins\"],\n    run: validateInstalledPlugins,\n  },\n  {\n    kind: \"content-skills\",\n    name: \"Skills\",\n    noun: \"skill\",\n    // `~/.claude/skills/` is shared with everything else that installs a skill there, so which of\n    // its directories are this installation's is a question only the config can answer for the\n    // ones carrying no provenance marker. A config nobody can read leaves that unanswerable.\n    readsConfig: true,\n    // `extractLocalSkill` DROPS a skill whose metadata.yaml is missing or unusable, so a \"not\n    // found\" from the skills row would be this finding re-worded.\n    blocks: [\"skills\"],\n    run: validateInstalledSkills,\n  },\n  {\n    kind: \"content-agents\",\n    name: \"Agents\",\n    noun: \"agent\",\n    readsConfig: false,\n    // Nothing downstream opens an agent .md. `Agents Compiled` asks whether the file is there and\n    // `No Orphans` reads the names of the files that are — broken frontmatter changes neither.\n    blocks: [],\n    run: validateInstalledAgents,\n  },\n];\n\nfunction contentStatus(errors: number, warnings: number): CheckResult[\"status\"] {\n  if (errors > 0) return \"fail\";\n  if (warnings > 0) return \"warn\";\n  return \"pass\";\n}\n\nfunction contentMessage(noun: string, count: number, errors: number, warnings: number): string {\n  // A pass that walked nothing can still report an issue — an unreadable plugin\n  // registry is a finding about the directory, not about a plugin inside it.\n  if (errors === 0 && warnings === 0) {\n    return count === 0 ? `No ${noun}s to validate` : `${plural(count, noun)} validated`;\n  }\n  return `${plural(count, noun)}: ${plural(errors, \"error\")}, ${plural(warnings, \"warning\")}`;\n}\n\nfunction formatContentIssue(issue: ContentIssue): string {\n  const marker = issue.severity === \"error\" ? \"ERROR\" : \"WARN\";\n  return `- [${marker}] ${issue.file}: ${issue.message}`;\n}\n\nfunction toContentResult(check: ContentCheck, validation: ContentValidation): CheckResult {\n  const errors = validation.issues.filter((issue) => issue.severity === \"error\").length;\n  const warnings = validation.issues.length - errors;\n\n  return {\n    kind: check.kind,\n    status: contentStatus(errors, warnings),\n    message: contentMessage(check.noun, validation.count, errors, warnings),\n    details: [\n      ...validation.notes.map((note) => `- ${note}`),\n      ...validation.issues.map(formatContentIssue),\n    ],\n  };\n}\n\n/**\n * The column every row's status symbol starts at. It has to clear the longest row name\n * the report prints — \"Marketplace Reachable\", 21 characters — or that row's name runs\n * straight into its own tick with no gap.\n */\nconst CHECK_WIDTH = 24;\n\n/** Section headings and the rows underneath them are indented one step apart. */\nconst SECTION_INDENT = \"  \";\nconst ROW_INDENT = \"    \";\n\nconst SECTION_CONTENT = \"Content checks\";\nconst SECTION_OPERATIONAL = \"Operational checks\";\nconst SKIP_NO_INSTALLATION = \"Skipped — no installation here (marketplace repository)\";\nconst SKIP_CONFIG_UNREADABLE = \"Skipped — the configuration that names them cannot be read\";\n\n/**\n * The whole operational layer standing down, for the one content finding that leaves every row\n * with nothing to say: a config nobody can read. It still says \"errors\" rather than naming that\n * file, because the config row is one of them and whatever else failed is above it too.\n */\nconst SKIP_AFTER_CONFIG_ERROR = \"Skipped — fix the content errors above first\";\n\n/**\n * The sentence a single row stands down with. Unlike its neighbours it names the finding rather\n * than the layer: which pass blocked it is the one thing separating a row that cannot answer from\n * the ones printing verdicts beside it.\n */\nfunction skipRestatingContent(nouns: string[]): string {\n  return `Skipped — this row would only restate the ${nouns.join(\" and \")} errors above`;\n}\n\nfunction formatCheckName(name: string): string {\n  return name.padEnd(CHECK_WIDTH);\n}\n\n/**\n * The glyph each row is headed with, every one of them from {@link UI_SYMBOLS}.\n *\n * The last two used to be literals here — `\"!\"` and `\"-\"` — and the second was the one that\n * mattered: `UI_SYMBOLS.SKIPPED` is an EN-DASH, so a stood-down row printed a different character\n * from the one the symbol table declares for exactly that state, while `UI_SYMBOLS.REMOVED` is\n * deliberately an ASCII hyphen for diff markers. Two glyphs a reader cannot tell apart, meaning\n * opposite things, and nothing pointing either literal at the table it belonged in.\n */\nfunction formatStatus(status: CheckResult[\"status\"]): string {\n  switch (status) {\n    case \"pass\":\n      return UI_SYMBOLS.CHECK;\n    case \"fail\":\n      return UI_SYMBOLS.CROSS;\n    case \"warn\":\n      return UI_SYMBOLS.DISCOURAGED;\n    case \"skip\":\n      return UI_SYMBOLS.SKIPPED;\n    default: {\n      const _exhaustive: never = status;\n      return _exhaustive;\n    }\n  }\n}\n\n/** The column a row's details start at, under its message. */\nconst DETAIL_INDENT = `${ROW_INDENT}${\" \".repeat(CHECK_WIDTH)}   `;\n\nfunction formatCheckLine(name: string, result: CheckResult): string[] {\n  const headerLine = `${ROW_INDENT}${formatCheckName(name)}${formatStatus(result.status)}  ${result.message}`;\n  const detailLines = (result.details ?? []).flatMap(indentedDetailLines);\n  return [headerLine, ...detailLines];\n}\n\n/**\n * A detail can be a whole refusal — a loader's message, paragraphs and all — so every one of its\n * lines is indented, and its blank lines dropped. Indenting the first alone printed the rest at\n * column 0, outside the row they belong to and between the rows below it.\n */\nfunction indentedDetailLines(detail: string): string[] {\n  return detail\n    .split(\"\\n\")\n    .filter((line) => line !== \"\")\n    .map((line) => `${DETAIL_INDENT}${line}`);\n}\n\nfunction formatSummary(results: CheckResult[]): string {\n  const counts = countBy(results, (r) => r.status);\n\n  const parts = [\n    `${counts.pass ?? 0} passed`,\n    plural(counts.warn ?? 0, \"warning\"),\n    plural(counts.fail ?? 0, \"error\"),\n  ];\n\n  return `${SECTION_INDENT}Summary: ${parts.join(\", \")}`;\n}\n\nconst TIPS: Array<{ kind: CheckKind; status: CheckResult[\"status\"]; tip: string }> = [\n  {\n    kind: \"agents\",\n    status: \"warn\",\n    tip: `  Tip: Run '${CLI_INVOKE_COMMAND} compile' to generate missing agent files`,\n  },\n  {\n    kind: \"config\",\n    status: \"fail\",\n    tip: `  Tip: Run '${CLI_INVOKE_COMMAND} init' to create or fix configuration`,\n  },\n  {\n    // The remedy for a valid config with nothing in it. Not the tip above: there is nothing to\n    // create and nothing to fix. `init` on this config opens the wizard rather than the dashboard\n    // — that is what the detection returning null is FOR — so it is the way to fill it in.\n    kind: \"config-empty\",\n    status: \"warn\",\n    tip: `  Tip: Nothing is configured yet — run '${CLI_INVOKE_COMMAND} init' to choose skills and sub-agents`,\n  },\n  {\n    // Printed beside the config tip above, which says how to get a configuration back and\n    // nothing about the files that outlived the old one. Both halves are named with what they\n    // actually do: `uninstall` matches skill directories by their own `forked-from` metadata and\n    // compiled agents by the marker each one carries, so neither needs the configuration that is\n    // gone — which is why the row can name both and this tip can promise both.\n    kind: \"orphans-unowned\",\n    status: \"fail\",\n    tip: `  Tip: Nothing declares the files above — '${CLI_INVOKE_COMMAND} init' writes a configuration that can own them again, or '${CLI_INVOKE_COMMAND} uninstall' removes them, the compiled agents included: each file listed carries this CLI's own provenance, which is what that command reads when there is no configuration left`,\n  },\n  {\n    kind: \"skills\",\n    status: \"fail\",\n    tip: \"  Tip: Check skill IDs in config match available skills\",\n  },\n  {\n    kind: \"installed\",\n    status: \"warn\",\n    // No command is named on purpose: 'eject skills --force' re-copies every skill in the\n    // marketplace and always targets project scope, so it cannot repair a global-scoped\n    // skill and it litters a plugin-mode project with local skill directories.\n    tip: \"  Tip: Re-eject the missing skills from the marketplace to restore their files\",\n  },\n];\n\nfunction formatTips(results: CheckResult[]): string[] {\n  return TIPS.filter((t) => results.some((r) => r.kind === t.kind && r.status === t.status)).map(\n    (t) => t.tip,\n  );\n}\n\n/**\n * The one remedy that applies to a config that cannot be read, once per such config, naming the\n * folder it is taken from. `init` does not clear such a file — it refuses it — so the config tip\n * would send the reader in a circle; this is the way out every refusing command names, worded the\n * same way and sending the reader to the same folder: the project, or the home directory for the\n * global config.\n *\n * Read again rather than threaded out of the content pass, and only once that pass has failed. A\n * failure it cannot classify is already that pass's own failed row, so it adds no tip of its own.\n */\nasync function recreateConfigTips(\n  contentResults: CheckResult[],\n  projectDir: string,\n): Promise<string[]> {\n  if (!failedContentKinds(contentResults).has(CONFIG_CHECK.kind)) return [];\n\n  const failures = await findConfigLoadFailures(projectDir).catch(() => []);\n  return failures.map(\n    (failure) =>\n      `  Tip: There is no automatic repair — recreate the configuration by running ${recreateConfigFrom(failure.scopeRoot)}`,\n  );\n}\n\n/** The row name every Layout row is printed under, one per scope. */\nconst LAYOUT_ROW_NAME = \"Layout\";\n\nfunction toLayoutResult(finding: LayoutFinding): CheckResult {\n  return {\n    kind: \"layout\",\n    status: finding.status,\n    message: finding.message,\n    details: finding.details,\n  };\n}\n\n/**\n * Registered projects whose own source folder is still the old one, as the registry spells them.\n *\n * Read from the global config's `projects` array and nothing else — which is exactly why the line\n * above the list says so. A config that cannot be loaded yields no list rather than a failed row:\n * the file itself is already this report's own finding, one row up.\n */\nasync function registeredProjectsOnTheOldFolder(home: string): Promise<string[]> {\n  const loaded = await loadInstalledConfig(home).catch(() => null);\n  return (loaded?.config.projects ?? []).filter(isOnTheLegacySourceFolder);\n}\n\n/**\n * Whether the installation in `dir` is read from the folder every pre-rename install carries.\n *\n * The provider is read off the directory rather than assumed: the retired name is Claude's, so a\n * registered project on another provider has only ever had one folder and is never on the old one.\n */\nfunction isOnTheLegacySourceFolder(dir: string): boolean {\n  return resolveSourceDir(dir, providerInUse(dir)).legacy;\n}\n\n/** The row name the placement and installation-ambiguity findings are printed under. */\nconst PLACEMENTS_ROW_NAME = \"Placements Offered\";\n\n/**\n * Whether this installation is one every other command will act on — as a ROW, not a throw.\n *\n * **It carries the two findings that make the rest of this report a claim about nothing.** A\n * configuration asking for a mode/scope cell its host does not offer is refused by `compile`,\n * `edit` and `update`; a scope holding an installation of each provider is refused by `edit`,\n * `uninstall`, `share` and `eject`. Until this row existed, `doctor` — the one command whose job\n * is saying whether an installation is healthy — walked straight past both and pronounced a clean\n * bill of health on a configuration no command would touch. A diagnostic that disagrees with every\n * command it is diagnosing is worse than a missing one.\n *\n * **It reports and never refuses**, which is the same distinction `settleSourceLayoutBeforeWriting`\n * draws for the rival-folder refusal: a command that changes nothing must not refuse to LOOK,\n * because this is exactly the state a user needs to see in order to fix it.\n *\n * The message is the refusal's own, word for word, off the same host roster — so what a user is\n * told here and what they are told when `compile` stops are one sentence, not two that agree\n * today.\n *\n * **The summary counts FINDINGS, and said \"unusable installation\" until 2026-09-22.** The two\n * are not the same number in either direction: one installation with an unofferable placement AND\n * an ambiguous folder contributes two findings, while the ambiguity finding is itself about a\n * scope holding two installations. A count of one noun printed over a list of another is a\n * sentence a reader cannot check against the lines underneath it.\n */\nasync function checkOfferedPlacements(projectDir: string): Promise<CheckResult> {\n  const findings = await everythingThatWouldStopACommandActing(projectDir);\n\n  if (findings.length === 0) {\n    return { kind: \"placements\", status: \"pass\", message: \"Every configured skill is placeable\" };\n  }\n\n  return {\n    kind: \"placements\",\n    status: \"fail\",\n    message: `${plural(findings.length, \"finding\")} would stop a command acting here`,\n    details: findings.map((finding) => `- ${finding}`),\n  };\n}\n\n/**\n * The two findings a command would stop on, in one list: a placement no host can fill, and a scope\n * holding an installation of each provider.\n *\n * Asked together rather than in sequence because neither answer depends on the other, and reported\n * together because they are one question for a user — \"will anything act on this?\" — with two ways\n * of being answered no.\n */\nasync function everythingThatWouldStopACommandActing(projectDir: string): Promise<string[]> {\n  const [unofferable, ambiguous] = await Promise.all([\n    unofferablePlacementsFound(projectDir),\n    ambiguityFinding(projectDir),\n  ]);\n\n  return ambiguous === null ? unofferable : [...unofferable, ambiguous];\n}\n\nfunction skippedResult(kind: CheckKind): CheckResult {\n  return { kind, status: \"skip\", message: \"Skipped (config invalid)\" };\n}\n\n/**\n * The skills row when the marketplace never loaded. Distinct from {@link skippedResult}: the\n * config is fine, and what is missing is the matrix to resolve its skills against.\n */\nfunction sourceUnreachableSkillsResult(): CheckResult {\n  return { kind: \"skills\", status: \"skip\", message: \"Skipped (marketplace unreachable)\" };\n}\n\nfunction skippedContentResult(kind: CheckKind): CheckResult {\n  return { kind, status: \"skip\", message: SKIP_CONFIG_UNREADABLE };\n}\n\n/** The content passes that failed this run — the set every operational row is gated against. */\nfunction failedContentKinds(contentResults: CheckResult[]): ReadonlySet<CheckKind> {\n  return new Set(contentResults.filter((r) => r.status === \"fail\").map((r) => r.kind));\n}\n\n/**\n * An operational row standing down because a content pass it reads through failed, naming what\n * blocked it. `null` — the answer for most rows on most runs — means nothing it reads is broken\n * and it can speak for itself.\n */\nfunction contentBlockedResult(\n  row: CheckKind,\n  failedContent: ReadonlySet<CheckKind>,\n): CheckResult | null {\n  const blockingNouns = CONTENT_CHECKS.filter((check) => failedContent.has(check.kind))\n    .filter((check) => check.blocks.includes(row))\n    .map((check) => check.noun);\n\n  if (blockingNouns.length === 0) return null;\n\n  return { kind: row, status: \"skip\", message: skipRestatingContent(blockingNouns) };\n}\n\nfunction runContentCheck(check: ContentCheck, projectDir: string): Promise<CheckResult> {\n  return safeCheck(check.kind, async () => toContentResult(check, await check.run(projectDir)));\n}\n\n/**\n * Wrap a check so a thrown exception becomes a `fail` result instead of crashing the\n * whole doctor run. Per-check isolation ensures one broken check does not mask others.\n */\nasync function safeCheck(kind: CheckKind, fn: () => Promise<CheckResult>): Promise<CheckResult> {\n  try {\n    return await fn();\n  } catch (error) {\n    return { kind, status: \"fail\", message: \"Check threw\", details: [getErrorMessage(error)] };\n  }\n}\n\nexport default class Doctor extends BaseCommand {\n  static summary = \"Diagnose common configuration issues\";\n\n  static description = `Run diagnostic checks on your ${DEFAULT_BRANDING.NAME} configuration to identify issues with config validity, skill resolution, agent compilation, and marketplace connectivity.`;\n\n  static examples = [\"<%= config.bin %> <%= command.id %>\"];\n\n  static flags = {};\n\n  async run(): Promise<void> {\n    await this.parse(Doctor);\n    const projectDir = process.cwd();\n\n    // The shared `verbose()` logger stays OFF, and nothing here switches it on. `doctor` used to,\n    // for the whole run — the mechanical residue of a `--verbose` flag whose removal was meant to\n    // make each row's own DETAILS unconditional, which `formatCheckLine` does on its own. What the\n    // logger added on top of that was the loaders' trace, spliced between the section headings and\n    // the rows they head: for a directory holding nothing, 27 lines of it, every one restating a\n    // row printed underneath it.\n    this.printHeader(await this.resolveBrandingName(projectDir));\n    const contentResults = await this.runContentChecks(projectDir);\n    const operationalResults = await this.runOperationalChecks(projectDir, contentResults);\n    const results = [...contentResults, ...operationalResults];\n\n    this.printResults(results, await recreateConfigTips(contentResults, projectDir));\n\n    if (results.some((r) => r.status === \"fail\")) {\n      this.exit(EXIT_CODES.ERROR);\n    }\n  }\n\n  private printHeader(brandingName: string): void {\n    this.log(\"\");\n    this.log(`${brandingName} Doctor`);\n    this.log(\"\");\n    this.log(`${SECTION_INDENT}Checking configuration health...`);\n    this.log(\"\");\n  }\n\n  /**\n   * The config is checked first and alone. A check that reads it to know what to validate would\n   * otherwise ask a file already reported as unreadable — and asking is what emitted the loader's\n   * own failure line once per read, spliced between these rows. Everything that walks installed\n   * content on disk still runs: it says something true whatever the config is in.\n   */\n  private async runContentChecks(projectDir: string): Promise<CheckResult[]> {\n    this.log(`${SECTION_INDENT}${SECTION_CONTENT}`);\n\n    const configResult = await runContentCheck(CONFIG_CHECK, projectDir);\n    const configUnreadable = configResult.status === \"fail\";\n\n    const rows = await Promise.all(\n      CONTENT_CHECKS.map(async (check) => ({\n        name: check.name,\n        result:\n          check.readsConfig && configUnreadable\n            ? skippedContentResult(check.kind)\n            : await runContentCheck(check, projectDir),\n      })),\n    );\n\n    const allRows = [{ name: CONFIG_CHECK.name, result: configResult }, ...rows];\n\n    for (const row of allRows) {\n      this.logCheck(row.name, row.result);\n    }\n\n    return allRows.map((row) => row.result);\n  }\n\n  /**\n   * The whole layer stands down for the two findings that leave every row with nothing to say: a\n   * config nobody can read — every row is read out of it, so all of them would be cascades of that\n   * one file — and a marketplace repository with nothing installed, where a marketplace author has\n   * no install for the layer to describe. Every other content error is scoped to the rows that\n   * read what it is about; {@link GatedContentCheck} says which those are, per pass.\n   */\n  private async runOperationalChecks(\n    projectDir: string,\n    contentResults: CheckResult[],\n  ): Promise<CheckResult[]> {\n    this.log(\"\");\n    this.log(`${SECTION_INDENT}${SECTION_OPERATIONAL}`);\n\n    const failedContent = failedContentKinds(contentResults);\n    if (failedContent.has(CONFIG_CHECK.kind)) {\n      this.log(`${ROW_INDENT}${SKIP_AFTER_CONFIG_ERROR}`);\n      return [];\n    }\n\n    const detected = await detectProject(projectDir);\n    if (!detected && (await this.isUninstalledSourceRepo(projectDir))) {\n      this.log(`${ROW_INDENT}${SKIP_NO_INSTALLATION}`);\n      return [];\n    }\n\n    const configState = await resolveConfigState(detected, projectDir);\n    return this.runAllChecks(projectDir, configState, failedContent);\n  }\n\n  /**\n   * A config file that exists but failed to load also detects as \"no project\", and\n   * that is a finding rather than an absence — so the skip requires no config file\n   * at all, not merely no usable one.\n   */\n  private async isUninstalledSourceRepo(projectDir: string): Promise<boolean> {\n    if (await fileExists(getInstalledConfigPath(projectDir))) return false;\n    return isSourceRepo(projectDir);\n  }\n\n  private async runAllChecks(\n    projectDir: string,\n    configState: ConfigState,\n    failedContent: ReadonlySet<CheckKind>,\n  ): Promise<CheckResult[]> {\n    const { result: configResult, config } = checkConfigValid(configState, projectDir);\n    this.logCheck(\"Config Valid\", configResult);\n\n    const layoutResults = await this.reportLayout(projectDir);\n\n    // Directly under Layout, and above every row that reads content: Layout says which FOLDER this\n    // report is about and this row says whether any command will act on what is in it.\n    const placementsResult = await safeCheck(\"placements\", () =>\n      checkOfferedPlacements(projectDir),\n    );\n    this.logCheck(PLACEMENTS_ROW_NAME, placementsResult);\n\n    // loadSource (called by checkSourceReachable) populates the matrix. Run it\n    // before checkSkillsResolved so skills lookups see a populated matrix; if\n    // source fails, skip skills rather than reporting false \"not found\" errors.\n    const sourceResult = await safeCheck(\"source\", () => checkSourceReachable(projectDir));\n\n    const filteredConfig = config ? filterExcludedEntries(config) : null;\n\n    const skillsResult = await this.resolveSkillsCheck(\n      config,\n      sourceResult,\n      projectDir,\n      failedContent,\n    );\n    this.logCheck(\"Skills Resolved\", skillsResult);\n\n    const agentsResult = filteredConfig\n      ? await safeCheck(\"agents\", () => checkAgentsCompiled(filteredConfig, projectDir))\n      : skippedResult(\"agents\");\n    this.logCheck(\"Agents Compiled\", agentsResult);\n\n    const orphansResult = await this.resolveOrphansCheck(config, configState, projectDir);\n    this.logCheck(\"No Orphans\", orphansResult);\n\n    const installedResult = filteredConfig\n      ? await safeCheck(\"installed\", () => checkSkillsInstalled(filteredConfig, projectDir))\n      : skippedResult(\"installed\");\n    this.logCheck(\"Skills Installed\", installedResult);\n\n    const pluginsResult = await this.resolvePluginsCheck(filteredConfig, projectDir, failedContent);\n    this.logCheck(\"Plugins Installed\", pluginsResult);\n\n    this.logCheck(\"Marketplace Reachable\", sourceResult);\n\n    return [\n      configResult,\n      ...layoutResults,\n      placementsResult,\n      skillsResult,\n      agentsResult,\n      orphansResult,\n      installedResult,\n      pluginsResult,\n      sourceResult,\n    ];\n  }\n\n  /**\n   * One `Layout` row per scope in play, and — at the home directory — the registered projects\n   * still on the old folder.\n   *\n   * Per scope rather than per machine: a project and the global installation can be on different\n   * layouts, and one row for the two can only be right about one of them.\n   *\n   * Printed right under `Config Valid`, because every row below it is read out of a config file\n   * whose folder this row is about — a scope with two rival folders has a config the rest of the\n   * report may have read from either one.\n   */\n  private async reportLayout(projectDir: string): Promise<CheckResult[]> {\n    const scopes = await sourceScopesInPlay(projectDir);\n    const rows = await Promise.all(\n      scopes.map(async (scope) => toLayoutResult(await layoutFindingFor(scope))),\n    );\n    const withRegistry = await this.appendRegistryList(projectDir, rows);\n\n    for (const row of withRegistry) {\n      this.logCheck(LAYOUT_ROW_NAME, row);\n    }\n    return withRegistry;\n  }\n\n  /**\n   * The registered projects still on the old folder, added to the LAST row, and only at HOME.\n   *\n   * At home because that is where the registry lives, and the move a legacy project needs is made\n   * by hand in that project — a list of other people's projects printed inside one of them is a\n   * list nobody standing there can act on. The caveat travels with it: the registry holds a\n   * fraction of the installations on a machine, so a list printed without it reads as an\n   * inventory.\n   */\n  private async appendRegistryList(\n    projectDir: string,\n    rows: CheckResult[],\n  ): Promise<CheckResult[]> {\n    const last = rows.at(-1);\n    if (!isHomeDirectory(projectDir) || last === undefined) return rows;\n\n    const legacyProjects = await registeredProjectsOnTheOldFolder(projectDir);\n    if (legacyProjects.length === 0) return rows;\n\n    const detailed: CheckResult = {\n      ...last,\n      status: last.status === \"fail\" ? \"fail\" : \"warn\",\n      details: [...(last.details ?? []), REGISTRY_IS_NOT_AN_INVENTORY, ...legacyProjects],\n    };\n    return [...rows.slice(0, -1), detailed];\n  }\n\n  /**\n   * The orphan row, and which question it can answer. With a config it names the compiled\n   * agents that config does not; with no config at all every installed file is unowned and it\n   * names all of them. It skips for the one state left — a config that loads and fails\n   * validation — because there the file that says who owns what has already been rejected, and\n   * an installation must not be called stranded on the strength of one nobody can trust.\n   */\n  private async resolveOrphansCheck(\n    config: ProjectConfig | null,\n    configState: ConfigState,\n    projectDir: string,\n  ): Promise<CheckResult> {\n    if (config) return safeCheck(\"orphans\", () => checkNoOrphans(config, projectDir));\n    if (configState.kind === \"absent\") {\n      return safeCheck(\"orphans\", () => checkUnownedInstallation(projectDir));\n    }\n    return skippedResult(\"orphans\");\n  }\n\n  /**\n   * The skills row, and the three states in which it cannot be computed: no config to read the\n   * skills out of, content it resolves against that the layer above has already reported broken,\n   * and a marketplace that never loaded — so there is no populated matrix to resolve them\n   * against, and every configured skill would be reported \"not found\".\n   */\n  private async resolveSkillsCheck(\n    config: ProjectConfig | null,\n    sourceResult: CheckResult,\n    projectDir: string,\n    failedContent: ReadonlySet<CheckKind>,\n  ): Promise<CheckResult> {\n    if (!config) return skippedResult(\"skills\");\n\n    const blocked = contentBlockedResult(\"skills\", failedContent);\n    if (blocked) return blocked;\n    if (sourceResult.status === \"fail\") return sourceUnreachableSkillsResult();\n\n    return safeCheck(\"skills\", () => checkSkillsResolved(config, matrix, projectDir));\n  }\n\n  /**\n   * The plugin row, and the two states in which it cannot be computed: no config to read the\n   * plugin-mode skills out of, and a plugin registry the layer above could not parse — which\n   * resolves as no installs at all, so every configured skill would be reported missing.\n   */\n  private async resolvePluginsCheck(\n    config: ProjectConfig | null,\n    projectDir: string,\n    failedContent: ReadonlySet<CheckKind>,\n  ): Promise<CheckResult> {\n    if (!config) return skippedResult(\"plugins\");\n\n    const blocked = contentBlockedResult(\"plugins\", failedContent);\n    if (blocked) return blocked;\n\n    return safeCheck(\"plugins\", () => checkPluginSkillsInstalled(config, projectDir));\n  }\n\n  private logCheck(name: string, result: CheckResult): void {\n    for (const line of formatCheckLine(name, result)) {\n      this.log(line);\n    }\n  }\n\n  private printResults(results: CheckResult[], recreateTips: string[]): void {\n    this.log(\"\");\n    this.log(formatSummary(results));\n\n    const tips = [...formatTips(results), ...recreateTips];\n    if (tips.length > 0) {\n      this.log(\"\");\n      for (const tip of tips) {\n        this.log(tip);\n      }\n    }\n\n    this.log(\"\");\n  }\n}\n","import path from \"node:path\";\n\nimport { CLAUDE_DIR, STANDARD_DIRS } from \"../../consts.js\";\nimport { unusedSourceFolderName, type SourceFolderMove } from \"./install-layout.js\";\nimport { listAgentMdFiles } from \"../agents/list-compiled-agents.js\";\nimport { readFile } from \"../../utils/fs.js\";\nimport {\n  bothSourceFoldersPresent,\n  compiledAgentNamesTheOtherFolder,\n  layoutIsCurrent,\n  layoutIsLegacy,\n  scopeLabel,\n} from \"../../utils/messages.js\";\nimport { folderBeingRead, type SourceScope } from \"./source-scopes.js\";\n\n/**\n * What `doctor`'s Layout row says about one scope.\n *\n * The row and the write commands' refusal read the same state through the same functions on\n * purpose: a collision one of them reports and the other does not is a state a user cannot get\n * out of. Reading is what `doctor` does, so it reports the state the refusal stops on rather than\n * stopping on it itself.\n *\n * One row per scope, never one for the machine. Two scopes can be on different layouts, and a\n * single row for both can only ever be wrong about one of them.\n */\n\n/** A row: how serious it is, the sentence it leads with, and what else is true of this scope. */\nexport type LayoutFinding = {\n  status: \"pass\" | \"warn\" | \"fail\";\n  message: string;\n  details: string[];\n};\n\nexport async function layoutFindingFor(scope: SourceScope): Promise<LayoutFinding> {\n  const { move } = scope;\n  const label = scopeLabel(scope.kind);\n\n  // A provider that never had a legacy folder has no move to describe, and until 2026-09-22 that\n  // left the row printing the scope's NAME with no predicate after it — \"This project\", which is\n  // not a sentence and says nothing about the layout the row exists to report. Both faults this\n  // row can otherwise carry are properties of having two folder names: `both` is false by\n  // construction for such a provider, and `unusedSourceFolderName` answers `null`, so there is\n  // nothing to lead with and the layout statement is the whole row.\n  if (move === null) {\n    return { status: \"pass\", message: layoutIsCurrent(label, scope.relName), details: [] };\n  }\n\n  const whichLayout = layoutStatement(scope, move, label);\n  const faults = await faultsFor(scope, move);\n  const [worst, ...rest] = faults;\n\n  if (worst === undefined) return { ...whichLayout, details: [] };\n\n  // The fault leads and the layout becomes a detail: both are true, and a row can only carry one\n  // status — so the line a reader must act on is the one at the top.\n  return {\n    status: \"fail\",\n    message: `${label}: ${worst}`,\n    details: [...rest.map((fault) => `${label}: ${fault}`), whichLayout.message],\n  };\n}\n\n/** Which of the two folders this scope is on, and how much of a problem that is on its own. */\nfunction layoutStatement(\n  scope: SourceScope,\n  move: SourceFolderMove,\n  label: string,\n): Pick<LayoutFinding, \"status\" | \"message\"> {\n  if (!scope.legacy) return { status: \"pass\", message: layoutIsCurrent(label, move.to.relName) };\n  return { status: \"warn\", message: layoutIsLegacy(label, move.from.relName, move.to.relName) };\n}\n\n/** Everything wrong with this scope's layout, most serious first. */\nasync function faultsFor(scope: SourceScope, move: SourceFolderMove): Promise<string[]> {\n  const staleAgents = await compiledAgentsNamingTheOtherFolder(scope);\n  return [...rivalFolderFault(scope, move), ...staleAgents];\n}\n\n/** Two folders on disk: whichever the resolver picked, the other one is being read by nobody. */\nfunction rivalFolderFault(scope: SourceScope, move: SourceFolderMove): string[] {\n  if (!scope.both) return [];\n  return [\n    bothSourceFoldersPresent(move.from.relName, move.to.relName, folderBeingRead(scope, move)),\n  ];\n}\n\n/**\n * Installed agents whose own prompt names the folder this scope is NOT on.\n *\n * `agent-summoner`'s playbook tells an agent where to author new sub-agents, so a copy compiled\n * under the other layout aims that instruction at a folder the resolver does not read: the files\n * it writes never compile, and nothing else in the product reports it. The remedy is a recompile,\n * which is what the message says.\n */\nasync function compiledAgentsNamingTheOtherFolder(scope: SourceScope): Promise<string[]> {\n  const unused = unusedSourceFolderName(scope.root, scope.provider);\n  if (unused === null) return [];\n\n  const agentsDir = path.join(scope.root, CLAUDE_DIR, STANDARD_DIRS.AGENTS);\n  const files = await listAgentMdFiles(agentsDir);\n  const named = await Promise.all(\n    files.map(async (file) => ({\n      file,\n      names: await namesFolder(path.join(agentsDir, file), unused),\n    })),\n  );\n\n  return named\n    .filter((entry) => entry.names)\n    .map((entry) => compiledAgentNamesTheOtherFolder(entry.file, unused));\n}\n\n/** Whether one compiled agent's text names the folder. An unreadable file names nothing. */\nasync function namesFolder(agentPath: string, folder: string): Promise<boolean> {\n  try {\n    return (await readFile(agentPath)).includes(folder);\n  } catch {\n    return false;\n  }\n}\n","import path from \"path\";\nimport { isRecord } from \"../utils/type-guards.js\";\nimport { parse as parseYaml } from \"yaml\";\nimport { z } from \"zod\";\nimport { glob, readFile, fileExists, directoryExists } from \"../utils/fs\";\nimport {\n  DIRS,\n  MARKETPLACE_JSON,\n  PLUGIN_MANIFEST_DIR,\n  SKILL_CATEGORIES_PATH,\n  SKILL_RULES_PATH,\n  SKILLS_DIR_PATH,\n  STACKS_FILE_PATH,\n  STANDARD_FILES,\n} from \"../consts\";\nimport {\n  agentYamlGenerationSchema,\n  metadataValidationSchema,\n  splitMetadataValidationIssues,\n  validateSkillMetadata,\n  skillCategoriesFileSchema,\n  skillRulesFileSchema,\n  stackConfigValidationSchema,\n  stacksConfigSchema,\n} from \"./schemas\";\nimport { parseFrontmatter } from \"./loading/loader\";\nimport { ConfigDefaultExportError, loadConfig, loadSourceRepoConfig } from \"./configuration\";\nimport { checkMatrixHealth, type MatrixHealthIssue } from \"./matrix\";\nimport {\n  loadSkillsMatrixFromSource,\n  MarketplaceManifestRequiredError,\n} from \"./loading/source-loader\";\nimport { MarketplaceNameRefusedError } from \"./loading/source-fetcher\";\nimport { matrix } from \"./matrix/matrix-provider\";\nimport { getErrorMessage } from \"../utils/errors\";\nimport { formatZodErrors } from \"./schema-validator\";\n\nexport type SourceValidationIssue = {\n  severity: \"error\" | \"warning\";\n  file: string;\n  message: string;\n};\n\nexport type SourceValidationResult = {\n  issues: SourceValidationIssue[];\n  skillCount: number;\n  errorCount: number;\n  warningCount: number;\n};\n\n/**\n * Who this report is for, relative to the marketplace it is about.\n *\n * You are the `\"author\"` of the marketplace being validated when it IS the directory the command\n * ran in; a marketplace anywhere else — fetched, or on disk at another path — is one you are only\n * a `\"consumer\"` of. Not \"is there a marketplace under the cwd\": that says nothing about the OTHER\n * marketplace a config may point at, and the severity turns on the per-marketplace question.\n *\n * It changes one finding. A slug a marketplace's rules dangle is a typo its author can fix and\n * wants the run to fail on, and it is a defect a consumer cannot touch in a file they cannot open\n * — while every skill still installs and still resolves. Whether the reader holds push rights is\n * not knowable here and is not the test: a checkout under your cursor is a file you can edit.\n */\nexport type MarketplaceReader = \"author\" | \"consumer\";\n\n/**\n * True when `dir` is itself a skills source repository — it carries the skills tree\n * `validateSource` walks, at `src/skills/` or wherever its own source config points.\n * A marketplace author's checkout answers yes; a consumer project answers no.\n */\nexport async function isSourceRepo(dir: string): Promise<boolean> {\n  // ABORT on an unreadable config, and it is caught rather than fatal at both callers: `doctor`\n  // reaches this through `safeCheck`, so the throw becomes a failed row instead of an aborted\n  // command, and its other caller asks only where no config file exists at all.\n  const sourceConfig = await loadSourceRepoConfig(dir);\n  return directoryExists(path.join(dir, sourceConfig?.skillsDir ?? SKILLS_DIR_PATH));\n}\n\n/** Checks if a key uses snake_case (has underscore between lowercase letters) */\nexport function isSnakeCase(key: string): boolean {\n  return /[a-z]_[a-z]/.test(key);\n}\n\n/**\n * Checks top-level keys for snake_case usage (camelCase is the convention).\n * Non-object input yields no issues.\n */\nexport function checkSnakeCaseKeys(rawMetadata: unknown, relPath: string): SourceValidationIssue[] {\n  if (!isRecord(rawMetadata)) return [];\n\n  return Object.keys(rawMetadata)\n    .filter(isSnakeCase)\n    .map((key) => ({\n      severity: \"error\" as const,\n      file: relPath,\n      message: `Key '${key}' uses snake_case — use camelCase instead`,\n    }));\n}\n\n/**\n * Warns when a skill directory's name does not equal the skill's machine id\n * (SKILL.md frontmatter `name`) — the key the loader registers the skill under.\n * Warning, not error: the loader still loads the skill by its id, but the\n * directory no longer signals which skill it contains.\n */\nexport function checkDirNameMatchesSkillId(\n  skillId: string,\n  relPath: string,\n  dirName: string,\n): SourceValidationIssue[] {\n  if (skillId === dirName) return [];\n  return [\n    {\n      severity: \"warning\",\n      file: relPath,\n      message: `Directory name '${dirName}' does not match skill id '${skillId}'`,\n    },\n  ];\n}\n\n/**\n * Reads a skill directory's SKILL.md frontmatter and checks the directory name\n * against the skill's machine id. When the id cannot be read (unreadable file or\n * missing/invalid frontmatter), reports that the check could not run.\n */\nasync function checkSkillDirName(\n  skillsDir: string,\n  skillsDirRelPath: string,\n  skillDir: string,\n): Promise<SourceValidationIssue[]> {\n  const dirName = path.basename(skillDir);\n  const skillMdRelPath = path.join(skillsDirRelPath, skillDir, STANDARD_FILES.SKILL_MD);\n\n  try {\n    const content = await readFile(path.join(skillsDir, skillDir, STANDARD_FILES.SKILL_MD));\n    const frontmatter = parseFrontmatter(content, skillMdRelPath);\n\n    if (frontmatter === null) {\n      return [\n        {\n          severity: \"warning\",\n          file: skillMdRelPath,\n          message: `Cannot verify directory name '${dirName}': missing or invalid ${STANDARD_FILES.SKILL_MD} frontmatter`,\n        },\n      ];\n    }\n\n    return checkDirNameMatchesSkillId(frontmatter.name, skillMdRelPath, dirName);\n  } catch (error) {\n    return [\n      {\n        severity: \"warning\",\n        file: skillMdRelPath,\n        message: `Cannot verify directory name '${dirName}': ${getErrorMessage(error)}`,\n      },\n    ];\n  }\n}\n\n/**\n * Finds missing SKILL.md / metadata.yaml pairs (pure function, no I/O).\n *\n * Returns issues for:\n * - Directories with SKILL.md but no metadata.yaml\n * - Directories with metadata.yaml but no SKILL.md\n */\nexport function validateSkillFilePairs(\n  skillMdDirs: Set<string>,\n  metadataDirs: Set<string>,\n  skillsDir: string,\n): SourceValidationIssue[] {\n  const missingMetadata = [...skillMdDirs]\n    .filter((dir) => !metadataDirs.has(dir))\n    .map((dir) => ({\n      severity: \"error\" as const,\n      file: path.join(skillsDir, dir),\n      message: `Missing ${STANDARD_FILES.METADATA_YAML} — skill directory has ${STANDARD_FILES.SKILL_MD} but no metadata`,\n    }));\n\n  const missingSkillMd = [...metadataDirs]\n    .filter((dir) => !skillMdDirs.has(dir))\n    .map((dir) => ({\n      severity: \"error\" as const,\n      file: path.join(skillsDir, dir),\n      message: `Missing ${STANDARD_FILES.SKILL_MD} — skill directory has ${STANDARD_FILES.METADATA_YAML} but no SKILL.md`,\n    }));\n\n  return [...missingMetadata, ...missingSkillMd];\n}\n\n/**\n * Validates a skills source repository for metadata correctness.\n *\n * Checks:\n * 1. Every metadata.yaml against the strict validation schema\n *    (over-length cliDescription is downgraded to a warning)\n * 2. Directory name equals the skill's machine id (SKILL.md frontmatter name)\n * 3. Cross-references resolve to existing skill IDs (via checkMatrixHealth)\n * 4. camelCase key convention (no snake_case)\n * 5. Every skill directory has both SKILL.md and metadata.yaml\n *\n * `reader` decides how loudly one of those findings is stated — see {@link MarketplaceReader}.\n * It defaults to `\"author\"`, the louder verdict: a caller that names nobody has said nothing\n * about who is reading, and under-reporting to the one person who can fix the file is the worse\n * of the two ways to be wrong.\n */\nexport async function validateSource(\n  sourcePath: string,\n  reader: MarketplaceReader = \"author\",\n): Promise<SourceValidationResult> {\n  const resolvedPath = path.isAbsolute(sourcePath) ? sourcePath : path.resolve(sourcePath);\n\n  if (!(await directoryExists(resolvedPath))) {\n    return buildResult(\n      [{ severity: \"error\", file: resolvedPath, message: \"Marketplace directory does not exist\" }],\n      0,\n    );\n  }\n\n  // ABORT on an unreadable config, caught by `validateOneSource`, which turns it into an issue\n  // against this marketplace. Defaulting past it would validate whatever sits at `src/skills/` and\n  // call a marketplace whose skills live elsewhere empty.\n  const sourceProjectConfig = await loadSourceRepoConfig(resolvedPath);\n  const skillsDirRelPath = sourceProjectConfig?.skillsDir ?? SKILLS_DIR_PATH;\n  const skillsDir = path.join(resolvedPath, skillsDirRelPath);\n\n  if (!(await directoryExists(skillsDir))) {\n    return buildResult(\n      [{ severity: \"error\", file: skillsDir, message: \"Skills directory does not exist\" }],\n      0,\n    );\n  }\n\n  // Phase 1: Check every skill directory has both SKILL.md and metadata.yaml\n  const skillMdFiles = await glob(`**/${STANDARD_FILES.SKILL_MD}`, skillsDir);\n  const metadataFiles = await glob(`**/${STANDARD_FILES.METADATA_YAML}`, skillsDir);\n\n  const skillMdDirs = new Set(skillMdFiles.map((f) => path.dirname(f)));\n  const metadataDirs = new Set(metadataFiles.map((f) => path.dirname(f)));\n\n  const pairIssues = validateSkillFilePairs(skillMdDirs, metadataDirs, skillsDir);\n\n  // Phase 2: Validate each metadata.yaml against strict schema and conventions.\n  // Pair violations were already reported by phase 1 — validate only complete pairs.\n  const validMetadataFiles = metadataFiles.filter((f) => skillMdDirs.has(path.dirname(f)));\n  const skillIssues = await validateSkillsInTurn(skillsDir, skillsDirRelPath, validMetadataFiles);\n\n  // Phase 3: Cross-reference validation via matrix health check\n  const crossReferenceIssues = await checkCrossReferences(resolvedPath, reader);\n\n  // Phases 4–6: optional source-repo targets — run in parallel\n  // Phase 4: stack skill metadata + stack configs\n  // Phase 5: agent metadata\n  // Phase 6: config/*.ts runtime exports\n  const extraIssues = await Promise.all([\n    validateStacks(resolvedPath),\n    validateAgents(resolvedPath),\n    validateConfigFiles(resolvedPath),\n  ]);\n\n  return buildResult(\n    [...pairIssues, ...skillIssues, ...crossReferenceIssues, ...extraIssues.flat()],\n    validMetadataFiles.length,\n  );\n}\n\n/** {@link validateOneSkill} over every complete pair, one skill at a time, in the order given. */\nasync function validateSkillsInTurn(\n  skillsDir: string,\n  skillsDirRelPath: string,\n  metadataFiles: string[],\n): Promise<SourceValidationIssue[]> {\n  const issues: SourceValidationIssue[] = [];\n  for (const metadataFile of metadataFiles) {\n    issues.push(...(await validateOneSkill(skillsDir, skillsDirRelPath, metadataFile)));\n  }\n  return issues;\n}\n\n/**\n * Why a YAML file could not be read, in the parser's own words. Two phases refuse the same\n * way — the skill-pair scan and the stack/agent scan — and they printed different sentences\n * for a while, one carrying the cause and one dropping it; naming the message once is what\n * stops them diverging again.\n */\nfunction yamlParseFailure(error: unknown): string {\n  return `Failed to parse YAML: ${getErrorMessage(error)}`;\n}\n\n/**\n * One complete skill pair, judged four ways: its metadata.yaml parses, its keys are camelCase,\n * it satisfies the strict published-skill schema, and its directory is named after the id its\n * SKILL.md declares. A file nothing can be parsed out of reports that and stops — every check\n * after it reads the parsed value, so each would only restate the same fault.\n */\nasync function validateOneSkill(\n  skillsDir: string,\n  skillsDirRelPath: string,\n  metadataFile: string,\n): Promise<SourceValidationIssue[]> {\n  const relPath = path.join(skillsDirRelPath, metadataFile);\n\n  let rawMetadata: unknown;\n  try {\n    rawMetadata = parseYaml(await readFile(path.join(skillsDir, metadataFile)));\n  } catch (error) {\n    return [{ severity: \"error\", file: relPath, message: yamlParseFailure(error) }];\n  }\n\n  return [\n    ...checkSnakeCaseKeys(rawMetadata, relPath),\n    ...checkMetadataSchema(rawMetadata, relPath),\n    // Independent of metadata validity — the id lives in SKILL.md frontmatter\n    ...(await checkSkillDirName(skillsDir, skillsDirRelPath, path.dirname(metadataFile))),\n  ];\n}\n\n/**\n * The strict published-skill schema's verdict, as its hard errors plus the one advisory\n * (over-length cliDescription) `splitMetadataValidationIssues` separates out.\n */\nfunction checkMetadataSchema(rawMetadata: unknown, relPath: string): SourceValidationIssue[] {\n  const result = validateSkillMetadata(rawMetadata);\n  if (result.success) return [];\n\n  const { errors, warnings } = splitMetadataValidationIssues(result.error, rawMetadata);\n  return [\n    ...errors.map((message) => ({ severity: \"error\" as const, file: relPath, message })),\n    ...warnings.map((message) => ({ severity: \"warning\" as const, file: relPath, message })),\n  ];\n}\n\n/**\n * The manifest as a reader of the report has to type it — the location half of the row\n * `doctor` prints, and therefore the file they open.\n */\nconst MARKETPLACE_MANIFEST_PATH = path.join(PLUGIN_MANIFEST_DIR, MARKETPLACE_JSON);\n\n/**\n * How loud a missing or unreadable manifest is, by who is reading: its author is one build from\n * the fix, and a consumer has nothing to load. Keyed on the whole union, so a new kind of reader\n * does not compile until someone decides this.\n */\nconst MANIFEST_REQUIRED_SEVERITY = {\n  author: \"warning\",\n  consumer: \"error\",\n} as const satisfies Record<MarketplaceReader, SourceValidationIssue[\"severity\"]>;\n\n/**\n * Whether every relationship the source declares resolves to a skill it actually holds.\n * A load that did not complete is reported by {@link matrixLoadFailure}, which decides\n * whether the failure is this marketplace's fault or merely this pass's.\n */\nasync function checkCrossReferences(\n  resolvedPath: string,\n  reader: MarketplaceReader,\n): Promise<SourceValidationIssue[]> {\n  try {\n    await loadSkillsMatrixFromSource({ sourceFlag: resolvedPath, skipExtraSources: true });\n    return checkMatrixHealth(matrix).map((healthIssue) =>\n      toSourceIssue(healthIssue, resolvedPath, reader),\n    );\n  } catch (error) {\n    return [matrixLoadFailure(error, reader)];\n  }\n}\n\n/**\n * A load this pass could not complete, as the finding a reader can act on.\n *\n * Three answers, because the failures are not one event. A marketplace with no valid\n * manifest cannot be loaded at all, so the finding is the manifest's, filed against the file\n * a reader opens rather than the categories file this pass happened to be reading, at the\n * severity {@link MANIFEST_REQUIRED_SEVERITY} gives its reader. A manifest naming the marketplace\n * something Claude Code registers no plugin under leaves nothing here installable, so it is\n * this marketplace's own ERROR, against the file that holds the name — without it the\n * Marketplaces row counted such a marketplace as validated and printed a tick beneath\n * `doctor`'s own warning about that same file, and a warning above a tick is what a reader\n * stops believing. Everything else only leaves this pass unable to run, so it stays a warning\n * against the file it was reading. Read off the throw's TYPE, so nothing here matches on a\n * sentence.\n */\nfunction matrixLoadFailure(error: unknown, reader: MarketplaceReader): SourceValidationIssue {\n  if (error instanceof MarketplaceManifestRequiredError) {\n    return {\n      severity: MANIFEST_REQUIRED_SEVERITY[reader],\n      file: MARKETPLACE_MANIFEST_PATH,\n      message: getErrorMessage(error),\n    };\n  }\n\n  if (error instanceof MarketplaceNameRefusedError) {\n    return {\n      severity: \"error\",\n      file: MARKETPLACE_MANIFEST_PATH,\n      message: getErrorMessage(error),\n    };\n  }\n\n  return {\n    severity: \"warning\",\n    file: SKILL_CATEGORIES_PATH,\n    message: `Cross-reference validation skipped: failed to load categories/rules: ${getErrorMessage(error)}`,\n  };\n}\n\n/**\n * The audit manifest, as a path a reader can open. It is this CLI's own file rather than anything\n * in the marketplace being validated, and it has to be: the verdict a matrix contradicts is\n * recorded there and the marketplace holds no copy of it.\n */\nconst SKILL_AUDIT_PATH = \"src/cli/lib/configuration/skill-audit.ts\";\n\n/**\n * The file a finding's defect is written in — the one `doctor` renders as the location half of the\n * line, and therefore the one the reader opens.\n *\n * Each answer is the file the check actually reads, which is not always the file its name suggests:\n *\n * - a category and the `domain` it omits are both declared in the categories file, and a skill\n *   naming a category nothing defines is the same file short an entry (its own metadata.yaml is\n *   the other half of that fix, and the message already names the skill);\n * - every relation a resolved skill carries comes from the rules file — no metadata.yaml declares\n *   one — so an unresolved reference and the dangling slug behind it are both written there;\n * - a verdict, recorded or missing, is the audit manifest's.\n *\n * Exhaustive on purpose: a seventh finding kind will not compile until someone decides where its\n * defect lives, which is the property one path shared by all six had already lost.\n */\nfunction fileHoldingDefect(finding: MatrixHealthIssue[\"finding\"]): string {\n  switch (finding) {\n    case \"category-missing-domain\":\n    case \"skill-unknown-category\":\n      return SKILL_CATEGORIES_PATH;\n    case \"skill-unresolved-relation-ref\":\n    case \"rule-unresolved-slug\":\n      return SKILL_RULES_PATH;\n    case \"audit-verdict-contradiction\":\n    case \"skill-unaudited\":\n      return SKILL_AUDIT_PATH;\n    default: {\n      const exhaustive: never = finding;\n      return exhaustive;\n    }\n  }\n}\n\n/**\n * One health finding as this reader should hear it. Every kind but one is reported at the\n * severity the health check gave it — that severity is a property of the defect. The exception\n * is the slug a marketplace's own rules dangle, which is a property of the defect AND of who is\n * looking: a typo the author can fix, and a file the consumer cannot open.\n *\n * The reader moves the severity and the wording; it never moves the file, because which file holds\n * the defect is not a fact about who is reading.\n */\nfunction toSourceIssue(\n  healthIssue: MatrixHealthIssue,\n  marketplacePath: string,\n  reader: MarketplaceReader,\n): SourceValidationIssue {\n  const file = fileHoldingDefect(healthIssue.finding);\n\n  if (reader === \"consumer\" && healthIssue.finding === \"rule-unresolved-slug\") {\n    return {\n      severity: \"warning\",\n      file,\n      message: consumedMarketplaceMessage(marketplacePath, healthIssue.details),\n    };\n  }\n\n  return {\n    severity: healthIssue.severity,\n    file,\n    message: healthIssue.details,\n  };\n}\n\n/**\n * The same finding, addressed to someone who did not write the rule. It leads with the\n * marketplace because that is the part the slug alone does not tell them, and it says outright\n * that there is nothing here to fix — a warning that sends a reader hunting through their own\n * project for a typo in a file they do not own is worse than no warning at all.\n */\nfunction consumedMarketplaceMessage(marketplacePath: string, details: string): string {\n  return `Marketplace '${marketplacePath}': ${details}. Nothing to fix here — the rule is that marketplace's, not this project's`;\n}\n\n/**\n * Validates stack-embedded skill metadata.yaml files and stack config.yaml files.\n * Skips silently when src/stacks/ does not exist.\n */\nasync function validateStacks(resolvedPath: string): Promise<SourceValidationIssue[]> {\n  const stacksDir = path.join(resolvedPath, DIRS.stacks);\n  if (!(await directoryExists(stacksDir))) return [];\n\n  const [skillMetaIssues, configIssues] = await Promise.all([\n    validateYamlFiles({\n      baseDir: stacksDir,\n      relBaseDir: DIRS.stacks,\n      pattern: `**/skills/**/${STANDARD_FILES.METADATA_YAML}`,\n      schema: metadataValidationSchema,\n    }),\n    validateYamlFiles({\n      baseDir: stacksDir,\n      relBaseDir: DIRS.stacks,\n      pattern: `*/${STANDARD_FILES.CONFIG_YAML}`,\n      schema: stackConfigValidationSchema,\n    }),\n  ]);\n  return [...skillMetaIssues, ...configIssues];\n}\n\n/**\n * Validates each hand-authored agent `metadata.yaml` under `DIRS.agents` against\n * `agentYamlGenerationSchema` — compilation's INPUT schema rather than an output one, since\n * compiling an agent writes one `.md` file and no YAML at all. Skips silently when src/agents/\n * does not exist.\n */\nasync function validateAgents(resolvedPath: string): Promise<SourceValidationIssue[]> {\n  const agentsDir = path.join(resolvedPath, DIRS.agents);\n  if (!(await directoryExists(agentsDir))) return [];\n\n  return validateYamlFiles({\n    baseDir: agentsDir,\n    relBaseDir: DIRS.agents,\n    pattern: `**/${STANDARD_FILES.AGENT_METADATA_YAML}`,\n    schema: agentYamlGenerationSchema,\n  });\n}\n\n/**\n * Validates TypeScript config files (skill-categories.ts, skill-rules.ts, stacks.ts)\n * by runtime-loading them via loadConfig and validating the default export.\n * Skips silently when a file does not exist.\n */\nasync function validateConfigFiles(resolvedPath: string): Promise<SourceValidationIssue[]> {\n  const results = await Promise.all([\n    validateTsConfig(resolvedPath, SKILL_CATEGORIES_PATH, skillCategoriesFileSchema),\n    validateTsConfig(resolvedPath, SKILL_RULES_PATH, skillRulesFileSchema),\n    validateTsConfig(resolvedPath, STACKS_FILE_PATH, stacksConfigSchema),\n  ]);\n  return results.flat();\n}\n\n/** One kind of YAML file a source may carry: where it lives, and the schema each must satisfy. */\ntype YamlFileScan = {\n  baseDir: string;\n  /**\n   * `baseDir` as issues report it, so their locations match the project-relative form used\n   * elsewhere.\n   */\n  relBaseDir: string;\n  pattern: string;\n  schema: z.ZodType<unknown>;\n};\n\n/**\n * {@link validateYamlFile} over every file the scan's pattern matches, one file at a time, in\n * glob order.\n */\nasync function validateYamlFiles(scan: YamlFileScan): Promise<SourceValidationIssue[]> {\n  const issues: SourceValidationIssue[] = [];\n  const files = await glob(scan.pattern, scan.baseDir);\n\n  for (const relFile of files) {\n    issues.push(...(await validateYamlFile(scan, relFile)));\n  }\n  return issues;\n}\n\n/**\n * One YAML file judged against the scan's schema: its parse error if it cannot be read, otherwise\n * the schema's errors as field-path messages — none when it passes.\n */\nasync function validateYamlFile(\n  scan: YamlFileScan,\n  relFile: string,\n): Promise<SourceValidationIssue[]> {\n  const displayPath = path.join(scan.relBaseDir, relFile);\n\n  let parsed: unknown;\n  try {\n    parsed = parseYaml(await readFile(path.join(scan.baseDir, relFile)));\n  } catch (error) {\n    return [{ severity: \"error\", file: displayPath, message: yamlParseFailure(error) }];\n  }\n\n  const result = scan.schema.safeParse(parsed);\n  if (result.success) return [];\n\n  return formatZodErrors(result.error).map((message) => ({\n    severity: \"error\" as const,\n    file: displayPath,\n    message,\n  }));\n}\n\n/**\n * Runtime-loads a TypeScript config file via loadConfig and reports validation failures.\n * Absent files are not errors — only report when the file exists but fails to load or validate.\n *\n * The two ways a file can say nothing are reported apart, because the author's next move differs\n * and they used to arrive wearing each other's words. A `null` is a file that exported nothing at\n * all; a module that exported only named bindings raises {@link ConfigDefaultExportError}, which\n * is the one this file's own config files get wrong — `export const skillRules = {...}` reads to\n * `loadConfig` as a namespace, and validating THAT against the schema reports whichever field the\n * schema names first as missing from a file the author can see it in.\n */\nasync function validateTsConfig(\n  resolvedPath: string,\n  relConfigPath: string,\n  schema: z.ZodType<unknown>,\n): Promise<SourceValidationIssue[]> {\n  const absPath = path.join(resolvedPath, relConfigPath);\n  if (!(await fileExists(absPath))) return [];\n\n  try {\n    const loaded = await loadConfig(absPath, schema);\n    if (loaded === null) {\n      return [{ severity: \"error\", file: relConfigPath, message: \"Config is empty\" }];\n    }\n    return [];\n  } catch (error) {\n    if (error instanceof ConfigDefaultExportError) {\n      return [{ severity: \"error\", file: relConfigPath, message: \"Config has no default export\" }];\n    }\n    return [\n      { severity: \"error\", file: relConfigPath, message: formatLoadError(relConfigPath, error) },\n    ];\n  }\n}\n\n/**\n * Normalizes a loadConfig error so the message references the relative config path,\n * not the absolute path embedded by loadConfig's own template string.\n */\nfunction formatLoadError(relConfigPath: string, error: unknown): string {\n  const raw = getErrorMessage(error);\n  const stripped = raw.replace(/Failed to load config from '[^']+':\\s*/, \"\");\n  return `Failed to load ${relConfigPath}: ${stripped}`;\n}\n\nfunction buildResult(issues: SourceValidationIssue[], skillCount: number): SourceValidationResult {\n  const errorCount = issues.filter((i) => i.severity === \"error\").length;\n  const warningCount = issues.filter((i) => i.severity === \"warning\").length;\n  return { issues, skillCount, errorCount, warningCount };\n}\n","import os from \"os\";\nimport path from \"path\";\nimport { partition } from \"remeda\";\nimport { getErrorMessage } from \"../utils/errors.js\";\nimport { PLUGIN_MANIFEST_DIR, STANDARD_FILES } from \"../consts.js\";\nimport { directoryExists, fileExists, listDirectories } from \"../utils/fs.js\";\nimport { listAgentMdFiles, splitAgentsByProvenance } from \"./agents/index.js\";\nimport { readSkillMetadata } from \"./loading/index.js\";\nimport {\n  configDirsInPlay,\n  findConfigLoadFailures,\n  isLocalSource,\n  loadInstalledConfig,\n  resolvePrimarySourceEntry,\n  type ConfigLoadError,\n  type LoadedProjectConfig,\n  type SourceEntry,\n} from \"./configuration/index.js\";\nimport { isHomeDirectory, resolveInstallPaths } from \"./installation/index.js\";\nimport { getInstalledConfigPath } from \"./installation/install-base-dir.js\";\nimport {\n  getInstalledPluginsRegistryPath,\n  getProjectPluginsDir,\n  getUserPluginsDir,\n  listRegisteredPluginInstalls,\n  validateAgentFrontmatter,\n  validateAllPlugins,\n  validatePlugin,\n  validateSkillFrontmatter,\n  type ResolvedPlugin,\n} from \"./plugins/index.js\";\nimport { splitMetadataValidationIssues, validateSkillMetadata } from \"./schemas.js\";\nimport { readForkedFromMetadata } from \"./skills/index.js\";\nimport { isSourceRepo, validateSource, type MarketplaceReader } from \"./source-validator.js\";\nimport { invalidResult, mergeValidationResults, validResult } from \"./validation-result.js\";\nimport { scopeLabel } from \"../utils/messages.js\";\nimport { plural } from \"../utils/string.js\";\nimport type { ValidationResult } from \"../types/index.js\";\n\n/** How a source repository under the cwd is labelled when it is not a registered source. */\nconst CWD_SOURCE_NAME = \"current directory\";\n\n/** What a compiled agent is called on disk; `splitAgentsByProvenance` answers in bare names. */\nconst AGENT_FILE_EXTENSION = \".md\";\n\nexport type ContentIssue = {\n  severity: \"error\" | \"warning\";\n  /** The file or directory a reader has to open to fix the issue. */\n  file: string;\n  message: string;\n};\n\n/**\n * One content pass: what it walked, what it found, and what it deliberately did\n * not check. `notes` carries neither errors nor warnings — it is the record of\n * which sources were reached and which were skipped.\n */\nexport type ContentValidation = {\n  count: number;\n  issues: ContentIssue[];\n  notes: string[];\n};\n\nconst NOTHING_VALIDATED: ContentValidation = { count: 0, issues: [], notes: [] };\n\nfunction mergeValidations(parts: ContentValidation[]): ContentValidation {\n  return parts.reduce(\n    (acc, part) => ({\n      count: acc.count + part.count,\n      issues: [...acc.issues, ...part.issues],\n      notes: [...acc.notes, ...part.notes],\n    }),\n    NOTHING_VALIDATED,\n  );\n}\n\n/** Render an absolute path with a `~/` prefix when it's under the user's home directory. */\nfunction displayDir(absolutePath: string): string {\n  const home = os.homedir();\n  if (absolutePath === home) return \"~\";\n  if (absolutePath.startsWith(home + path.sep)) {\n    return `~${path.sep}${path.relative(home, absolutePath)}`;\n  }\n  return absolutePath;\n}\n\nfunction toIssues(file: string, result: ValidationResult): ContentIssue[] {\n  return [\n    ...result.errors.map((message) => ({ severity: \"error\" as const, file, message })),\n    ...result.warnings.map((message) => ({ severity: \"warning\" as const, file, message })),\n  ];\n}\n\n/** Says which of the three load outcomes a config file is in, without restating the loader. */\nconst CONFIG_UNREADABLE = \"exists but could not be loaded\";\n\n/**\n * Validates the config files this run reads: the project's own and the global one it inlines.\n *\n * A config that exists and cannot be parsed is reported here rather than left to the operational\n * layer, for the reason that layer exists to be gated on — every operational row is read OUT of\n * this file, so each would be a cascade of the same fault. It is also the only report that can\n * carry the loader's reason: the layers below re-read the file per check, and their own\n * diagnostics for it are what used to arrive spliced between the rows.\n *\n * An ABSENT config is not a finding here. It is the legitimate state `init` exists for, and the\n * operational layer already names it and offers the remedy that fits it.\n */\nexport async function validateProjectConfigFile(projectDir: string): Promise<ContentValidation> {\n  const [present, failures] = await Promise.all([\n    countExistingConfigs(projectDir),\n    findConfigLoadFailures(projectDir),\n  ]);\n\n  return { count: present, issues: failures.map(toUnreadableConfigIssue), notes: [] };\n}\n\n/**\n * Led by whose config it is, as every config row `doctor` prints is: from a project, the file can\n * be its own or the global one it inherits.\n */\nfunction toUnreadableConfigIssue(failure: ConfigLoadError): ContentIssue {\n  return {\n    severity: \"error\",\n    file: `${scopeLabel(failure.scope)}'s ${displayDir(failure.configPath)}`,\n    message: `${CONFIG_UNREADABLE}: ${failure.reason}`,\n  };\n}\n\nasync function countExistingConfigs(projectDir: string): Promise<number> {\n  const present = await Promise.all(\n    configDirsInPlay(projectDir).map((dir) => fileExists(getInstalledConfigPath(dir))),\n  );\n  return present.filter(Boolean).length;\n}\n\n/**\n * Validates the marketplace this installation reads from when it is local, plus the current\n * directory when that is itself a skills source repository — that repository is the content a\n * marketplace author runs this against, and it is not the source they read skills from.\n * A remote marketplace is recorded as skipped rather than fetched.\n *\n * Each one is validated as the reader's own or as someone else's — see {@link readerFor}.\n */\nexport async function validateRegisteredSources(projectDir: string): Promise<ContentValidation> {\n  // DEGRADE on an unreadable config. This pass declares `readsConfig: true`, so `doctor` stands it\n  // down before it runs whenever the config check has already reported the file — and if it is\n  // reached anyway, `safeCheck` turns the throw into a failed row rather than an aborted run. A\n  // command whose job is naming what is wrong here must survive the thing it is naming.\n  const primary = await resolvePrimarySourceEntry(projectDir);\n  const registered = [primary];\n  const remote = registered.filter((source) => !isLocalSource(source.url));\n  const local = await localSourcesToValidate(projectDir, registered);\n\n  const outcomes = await Promise.all(\n    local.map((source) => validateOneSource(source, readerFor(projectDir, source))),\n  );\n\n  return {\n    count: local.length,\n    issues: outcomes.flatMap((outcome) => outcome.issues),\n    notes: [\n      ...outcomes.map((outcome) => outcome.note),\n      ...remote.map((source) => `${source.name} (${source.url}) — skipped (remote)`),\n    ],\n  };\n}\n\nasync function localSourcesToValidate(\n  projectDir: string,\n  registered: SourceEntry[],\n): Promise<SourceEntry[]> {\n  const local = registered.filter((source) => isLocalSource(source.url));\n  const alreadyCovered = local.some((source) => isCwdMarketplace(projectDir, source));\n\n  if (alreadyCovered || !(await isSourceRepo(projectDir))) return local;\n\n  return [...local, { name: CWD_SOURCE_NAME, url: projectDir }];\n}\n\n/** Whether this marketplace IS the directory the command ran in, however the config spells it. */\nfunction isCwdMarketplace(projectDir: string, source: SourceEntry): boolean {\n  return path.resolve(projectDir, source.url) === projectDir;\n}\n\n/**\n * Where this layer decides what the reader's relationship to a marketplace is — the one place\n * that holds both the directory the command ran in and the path of each marketplace it validates.\n * The appended `CWD_SOURCE_NAME` entry answers `\"author\"` by construction, which is the whole of\n * why a marketplace author's own repository is judged the way they need it to be.\n */\nfunction readerFor(projectDir: string, source: SourceEntry): MarketplaceReader {\n  return isCwdMarketplace(projectDir, source) ? \"author\" : \"consumer\";\n}\n\ntype SourceOutcome = { note: string; issues: ContentIssue[] };\n\nasync function validateOneSource(\n  source: SourceEntry,\n  reader: MarketplaceReader,\n): Promise<SourceOutcome> {\n  const label = `${source.name} (${source.url})`;\n  try {\n    const result = await validateSource(source.url, reader);\n    return { note: `${label} — ${plural(result.skillCount, \"skill\")}`, issues: result.issues };\n  } catch (error) {\n    return {\n      note: `${label} — failed`,\n      issues: [{ severity: \"error\", file: source.url, message: getErrorMessage(error) }],\n    };\n  }\n}\n\n/** Validates every installed plugin bundle in the global and project plugin directories. */\nexport async function validateInstalledPlugins(projectDir: string): Promise<ContentValidation> {\n  const dirs = [\n    getUserPluginsDir(),\n    ...(isHomeDirectory(projectDir) ? [] : [getProjectPluginsDir(projectDir)]),\n  ];\n  return mergeValidations(await Promise.all(dirs.map(validatePluginsDirectory)));\n}\n\nasync function validatePluginsDirectory(pluginsDir: string): Promise<ContentValidation> {\n  if (!(await directoryExists(pluginsDir))) return NOTHING_VALIDATED;\n\n  if (await fileExists(getInstalledPluginsRegistryPath(pluginsDir))) {\n    const registryValidation = await validateRegistryPlugins(pluginsDir);\n    if (registryValidation !== undefined) return registryValidation;\n  }\n\n  const pluginDirs = await findPluginDirectories(pluginsDir);\n  if (pluginDirs.length === 0) return NOTHING_VALIDATED;\n\n  const { results } = await validateAllPlugins(pluginsDir);\n\n  return {\n    count: results.length,\n    issues: results.flatMap(({ name, result }) => toIssues(name, result)),\n    notes: [],\n  };\n}\n\n/**\n * Validates the installs recorded in the plugins directory's `installed_plugins.json`\n * (claude CLI >=2.1.220 cache layout). Returns undefined when the registry records no\n * installs so the caller can fall back to the direct-children scan (older/manual layouts).\n */\nasync function validateRegistryPlugins(pluginsDir: string): Promise<ContentValidation | undefined> {\n  let installs: ResolvedPlugin[];\n  try {\n    installs = await listRegisteredPluginInstalls(pluginsDir);\n  } catch (error) {\n    return {\n      count: 0,\n      issues: [\n        {\n          severity: \"error\",\n          file: displayDir(getInstalledPluginsRegistryPath(pluginsDir)),\n          message: getErrorMessage(error),\n        },\n      ],\n      notes: [],\n    };\n  }\n\n  if (installs.length === 0) return undefined;\n\n  // A recorded installPath that no longer exists surfaces as an invalid plugin\n  // via validatePlugin's structure check, not a crash.\n  const results = await Promise.all(\n    installs.map(async ({ pluginKey, installPath }) =>\n      toIssues(pluginKey, await validatePlugin(installPath)),\n    ),\n  );\n\n  return { count: installs.length, issues: results.flat(), notes: [] };\n}\n\nasync function findPluginDirectories(pluginsDir: string): Promise<string[]> {\n  const entries = await listDirectories(pluginsDir);\n  const checks = await Promise.all(\n    entries.map(async (name) => ({\n      name,\n      isPlugin: await directoryExists(path.join(pluginsDir, name, PLUGIN_MANIFEST_DIR)),\n    })),\n  );\n  return checks.filter((check) => check.isPlugin).map((check) => check.name);\n}\n\n/**\n * Validates the SKILL.md and metadata.yaml of every installed skill this installation owns, both\n * scopes.\n *\n * Ownership has to be asked because `~/.claude/skills/` is CLAUDE CODE's directory, shared with\n * everything else that installs a skill there — not this CLI's private space. Judging every\n * directory in it against this CLI's schema reported a skill some other tool put there as a fault\n * in the user's install, in a file they never wrote and cannot fix from here.\n *\n * Two claims make a directory this installation's, and either is enough:\n *\n * - **The configuration in play names its id.** Both configs a run reads, because both scopes are\n *   walked. This is the claim that keeps `doctor` loud where it matters most: the provenance\n *   marker lives INSIDE metadata.yaml, so a skill whose metadata is missing or unparseable — the\n *   plainest breakage there is — can carry no marker to be recognised by.\n * - **The directory carries `forkedFrom`.** The marker this CLI stamps into every skill directory\n *   it writes, and the same question `uninstall` asks before removing anything. It answers for the\n *   skills a configuration has stopped naming, or never got the chance to.\n *\n * A directory neither claim reaches is not judged and not counted. It IS named — see\n * {@link foreignSkillNote}: a check that quietly walks past a directory is indistinguishable from\n * one that missed it.\n */\nexport async function validateInstalledSkills(projectDir: string): Promise<ContentValidation> {\n  const configuredIds = await configuredSkillIds(projectDir);\n  return mergeValidations(\n    await Promise.all(\n      installedDirs(projectDir, \"skillsDir\").map((dir) =>\n        validateSkillsDirectory(dir, configuredIds),\n      ),\n    ),\n  );\n}\n\n/** Every skill id the configs this run reads name, across both scopes and both install modes. */\nasync function configuredSkillIds(projectDir: string): Promise<ReadonlySet<string>> {\n  const loaded = await Promise.all(\n    configDirsInPlay(projectDir).map((dir) => loadInstalledConfig(dir)),\n  );\n  return new Set(loaded.flatMap(configuredIdsOf));\n}\n\nfunction configuredIdsOf(loaded: LoadedProjectConfig | null): string[] {\n  if (!loaded) return [];\n  return loaded.config.skills.map((skill) => skill.id);\n}\n\n/** Validates the frontmatter of every compiled agent file, both scopes. */\nexport async function validateInstalledAgents(projectDir: string): Promise<ContentValidation> {\n  return mergeValidations(\n    await Promise.all(installedDirs(projectDir, \"agentsDir\").map(validateAgentsDirectory)),\n  );\n}\n\n/**\n * The directories to walk for an installed-content pass. At the home directory both\n * scopes resolve to the same place, so it is walked once instead of twice.\n */\nfunction installedDirs(projectDir: string, key: \"skillsDir\" | \"agentsDir\"): string[] {\n  const global = resolveInstallPaths(projectDir, \"global\")[key];\n  if (isHomeDirectory(projectDir)) return [global];\n  return [global, resolveInstallPaths(projectDir, \"project\")[key]];\n}\n\n/** What an installed-content pass walked, named rather than validated. */\nexport type InstalledArtifacts = {\n  /** Every skill directory this CLI can prove it wrote, both scopes, as display paths. */\n  skills: string[];\n  /** Every compiled agent file this CLI can prove it wrote, both scopes, as display paths. */\n  agents: string[];\n};\n\n/**\n * The same two walks {@link validateInstalledSkills} and {@link validateInstalledAgents} count,\n * naming what belongs to this installation instead of judging it. `doctor` reports this when no\n * configuration exists to compare the installation against: there is nothing to validate the\n * files AGAINST, and naming them is the whole finding.\n *\n * Each walk applies the same ownership question its own pass asks, minus the half that needs a\n * config to answer — see {@link listSkillDirsWithOurProvenance} and\n * {@link listAgentFilesWithOurProvenance}. Both are the question the command this row sends the\n * reader to asks before it removes anything, so what is named here is what `uninstall` takes.\n */\nexport async function listInstalledArtifacts(projectDir: string): Promise<InstalledArtifacts> {\n  const [skills, agents] = await Promise.all([\n    listAcrossScopes(installedDirs(projectDir, \"skillsDir\"), listSkillDirsWithOurProvenance),\n    listAcrossScopes(installedDirs(projectDir, \"agentsDir\"), listAgentFilesWithOurProvenance),\n  ]);\n  return { skills, agents };\n}\n\n/**\n * The compiled agent files in one tree that this CLI can prove it wrote.\n *\n * The agent axis's counterpart to {@link listSkillDirsWithOurProvenance}, and deliberately\n * `splitAgentsByProvenance` rather than a second reading of the same marker: `uninstall` decides\n * what to remove with no configuration by asking that function, so a listing built any other way\n * could offer a file it then refused. It did — every `*.md` in the directory was named here while\n * the remover took only the marked ones, so a hand-authored agent was offered by one screen and\n * declined by the next.\n *\n * A file that cannot be read carries no marker and is not listed, which is that function's own\n * rule: \"cannot prove it is ours\" and \"is not ours\" call for the same answer. Nothing goes\n * unmentioned either way — {@link validateInstalledAgents} walks every agent file whatever state\n * the config is in.\n */\nasync function listAgentFilesWithOurProvenance(agentsDir: string): Promise<string[]> {\n  const { marked } = await splitAgentsByProvenance(agentsDir);\n  return marked.map((name) => `${name}${AGENT_FILE_EXTENSION}`);\n}\n\n/**\n * The skill directories in one tree that this CLI can prove it wrote.\n *\n * With no configuration left to name an id, the provenance marker is the only claim a directory\n * can carry — and it is the claim `uninstall` reads before removing anything, so every directory\n * listed here is one that command would actually remove. Listing a directory it would refuse is\n * the CLI recommending what it then declines to do.\n *\n * The marker lives INSIDE `metadata.yaml`, so a directory whose metadata is missing or unreadable\n * can carry no marker and is not listed. That is deliberate rather than a gap: \"cannot prove it is\n * ours\" and \"is not ours\" call for the same answer — leave it alone — which is the rule\n * `splitAgentsByProvenance` already applies to compiled agents. Nothing goes unmentioned either\n * way: {@link validateInstalledSkills} runs whatever state the config is in, and names every\n * directory it stepped over.\n */\nasync function listSkillDirsWithOurProvenance(skillsDir: string): Promise<string[]> {\n  const names = await listDirectories(skillsDir);\n  const judged = await Promise.all(\n    names.map(async (name) => ({ name, ours: await carriesOurProvenance(skillsDir, name) })),\n  );\n  return judged.filter((entry) => entry.ours).map((entry) => entry.name);\n}\n\nasync function listAcrossScopes(\n  dirs: string[],\n  listEntries: (dir: string) => Promise<string[]>,\n): Promise<string[]> {\n  const perDir = await Promise.all(dirs.map((dir) => listDisplayPaths(dir, listEntries)));\n  return perDir.flat();\n}\n\n/** One directory's entries as display paths, or nothing when the directory is absent. */\nasync function listDisplayPaths(\n  dir: string,\n  listEntries: (dir: string) => Promise<string[]>,\n): Promise<string[]> {\n  if (!(await directoryExists(dir))) return [];\n  const entries = await listEntries(dir);\n  return entries.map((entry) => displayDir(path.join(dir, entry)));\n}\n\nasync function validateSkillsDirectory(\n  skillsDir: string,\n  configuredIds: ReadonlySet<string>,\n): Promise<ContentValidation> {\n  if (!(await directoryExists(skillsDir))) return NOTHING_VALIDATED;\n\n  const skillDirs = await listDirectories(skillsDir);\n  if (skillDirs.length === 0) return NOTHING_VALIDATED;\n\n  const judged = await Promise.all(\n    skillDirs.map(async (name) => ({\n      name,\n      ours: await isOurSkillDirectory(skillsDir, name, configuredIds),\n    })),\n  );\n  const [ours, foreign] = partition(judged, (entry) => entry.ours);\n\n  const results = await Promise.all(\n    ours.map(async ({ name }) => {\n      const skillDir = path.join(skillsDir, name);\n      return toIssues(displayDir(skillDir), await validateInstalledSkill(skillDir));\n    }),\n  );\n\n  return {\n    count: ours.length,\n    issues: results.flat(),\n    notes: foreign.map(({ name }) => foreignSkillNote(skillsDir, name)),\n  };\n}\n\n/** Either claim this installation has on a skill directory — see {@link validateInstalledSkills}. */\nasync function isOurSkillDirectory(\n  skillsDir: string,\n  name: string,\n  configuredIds: ReadonlySet<string>,\n): Promise<boolean> {\n  if (configuredIds.has(name)) return true;\n  return carriesOurProvenance(skillsDir, name);\n}\n\n/**\n * The claim a skill directory carries on its own, independent of any configuration: the\n * `forkedFrom` block the copier stamps into every directory this CLI writes. One definition,\n * because the union above and the no-config listing are the same judgement with and without its\n * other half — and `uninstall` decides what to remove by asking exactly this.\n */\nasync function carriesOurProvenance(skillsDir: string, name: string): Promise<boolean> {\n  return (await readForkedFromMetadata(path.join(skillsDir, name))) !== null;\n}\n\n/**\n * A directory this pass declined to judge, named so the count and the directory listing do not\n * silently disagree. Not a warning: nothing here is wrong, and a reader sent to fix a skill they\n * did not install is worse off than one told plainly that it is not this CLI's to police.\n */\nfunction foreignSkillNote(skillsDir: string, name: string): string {\n  return `${displayDir(path.join(skillsDir, name))} — not installed by this CLI and named by no configuration here: not validated`;\n}\n\nasync function validateAgentsDirectory(agentsDir: string): Promise<ContentValidation> {\n  if (!(await directoryExists(agentsDir))) return NOTHING_VALIDATED;\n\n  const agentFiles = await listAgentMdFiles(agentsDir);\n  if (agentFiles.length === 0) return NOTHING_VALIDATED;\n\n  const results = await Promise.all(\n    agentFiles.map(async (fileName) => {\n      const agentPath = path.join(agentsDir, fileName);\n      return toIssues(displayDir(agentPath), await validateAgentFrontmatter(agentPath));\n    }),\n  );\n\n  return { count: agentFiles.length, issues: results.flat(), notes: [] };\n}\n\nasync function validateInstalledSkill(skillDir: string): Promise<ValidationResult> {\n  const skillMd = await validateSkillFile(\n    skillDir,\n    STANDARD_FILES.SKILL_MD,\n    validateSkillFrontmatter,\n  );\n  const metadata = await validateSkillFile(\n    skillDir,\n    STANDARD_FILES.METADATA_YAML,\n    validateInstalledSkillMetadata,\n  );\n\n  return mergeValidationResults([skillMd, metadata]);\n}\n\n/** One of an installed skill's files judged by `validate`, or the error of its absence. */\nasync function validateSkillFile(\n  skillDir: string,\n  fileName: string,\n  validate: (filePath: string) => Promise<ValidationResult>,\n): Promise<ValidationResult> {\n  const filePath = path.join(skillDir, fileName);\n  if (!(await fileExists(filePath))) return invalidResult(`Missing ${fileName}`);\n  return validate(filePath);\n}\n\nasync function validateInstalledSkillMetadata(metadataPath: string): Promise<ValidationResult> {\n  // Same judgment `compile` refuses on and local-skill discovery skips on: a file\n  // that describes no skill is reported here as the error it is. The strict\n  // published-skill checks below are layered on top of that verdict, never against\n  // it — doctor reports what the other two passes refuse, and then some.\n  const read = await readSkillMetadata(metadataPath);\n  if (!read.usable) {\n    return invalidResult(`${STANDARD_FILES.METADATA_YAML}: ${read.reason}`);\n  }\n\n  const metadata = read.metadata;\n  const result = validateSkillMetadata(metadata);\n  if (result.success) {\n    return validResult();\n  }\n\n  // Over-length cliDescription is advisory — only hard schema violations invalidate the skill\n  const { errors, warnings } = splitMetadataValidationIssues(result.error, metadata);\n  return {\n    valid: errors.length === 0,\n    errors: errors.map((e) => `${STANDARD_FILES.METADATA_YAML}: ${e}`),\n    warnings: warnings.map((w) => `${STANDARD_FILES.METADATA_YAML}: ${w}`),\n  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+{"version":3,"sources":["../../src/cli/commands/doctor.ts","../../src/cli/lib/source-validator.ts","../../src/cli/lib/content-validator.ts"],"sourcesContent":["import os from \"os\";\nimport path from \"path\";\nimport { BaseCommand } from \"../base-command\";\nimport { getErrorMessage } from \"../utils/errors\";\nimport { EXIT_CODES } from \"../lib/exit-codes\";\nimport {\n  effectivelyExcludedSkillIds,\n  findConfigLoadFailures,\n  loadInstalledConfig,\n  validateProjectConfig,\n  SOURCE_ENV_VAR,\n  type ResolvedConfig,\n} from \"../lib/configuration\";\nimport { loadSource, detectProject, type DetectedProject } from \"../lib/operations\";\nimport { matrix } from \"../lib/matrix/matrix-provider\";\nimport { discoverLocalSkills } from \"../lib/skills\";\nimport { getStackSkillIds } from \"../lib/stacks\";\nimport { filterExcludedEntries, listAgentFilesOf } from \"../lib/agents\";\nimport { getVerifiedPluginInstallPaths, parseMarketplacePluginRef } from \"../lib/plugins\";\nimport {\n  declaresNoContent,\n  isHomeDirectory,\n  installBaseDir,\n  resolveInstallPaths,\n} from \"../lib/installation\";\nimport {\n  agentCodec,\n  type AgentCodec,\n  hostCompilesAgent,\n  providerInUse,\n  relativeConfigPath,\n  skillsDir,\n  skillsPathPrefix,\n} from \"../lib/installation/install-layout\";\nimport { ambiguityFinding } from \"../lib/installation/provider-flag\";\nimport { unofferablePlacementsFound } from \"../lib/hosts/configured-placements\";\nimport {\n  sourceScopesInPlay,\n  type ScopeKind,\n  type SourceScope,\n} from \"../lib/installation/source-scopes\";\nimport { layoutIsCurrent, recreateConfigFrom, scopeLabel, scopeNoun } from \"../utils/messages\";\nimport { getInstalledConfigPath } from \"../lib/installation/install-base-dir\";\nimport { isSourceRepo } from \"../lib/source-validator\";\nimport {\n  listInstalledArtifacts,\n  validateInstalledAgents,\n  validateInstalledPlugins,\n  validateInstalledSkills,\n  validateProjectConfigFile,\n  validateRegisteredSources,\n  type ContentIssue,\n  type ContentValidation,\n} from \"../lib/content-validator\";\nimport type { SourceLoadResult } from \"../lib/loading\";\nimport type {\n  AgentName,\n  AgentScopeConfig,\n  MergedSkillsMatrix,\n  ProjectConfig,\n  SkillConfig,\n  SkillId,\n  SkillScope,\n} from \"../types\";\nimport { fileExists, directoryExists } from \"../utils/fs\";\nimport { plural } from \"../utils/string\";\nimport {\n  CLI_INVOKE_COMMAND,\n  DEFAULT_BRANDING,\n  EJECT_SOURCE,\n  STANDARD_FILES,\n  UI_SYMBOLS,\n  type Provider,\n} from \"../consts\";\nimport { countBy, unique } from \"remeda\";\n\ntype CheckKind =\n  | \"config\"\n  | \"config-empty\"\n  | \"layout\"\n  | \"placements\"\n  | \"skills\"\n  | \"agents\"\n  | \"orphans\"\n  | \"orphans-unowned\"\n  | \"installed\"\n  | \"plugins\"\n  | \"source\"\n  | \"content-config\"\n  | \"content-sources\"\n  | \"content-plugins\"\n  | \"content-skills\"\n  | \"content-agents\";\n\ntype CheckResult = {\n  kind: CheckKind;\n  status: \"pass\" | \"fail\" | \"warn\" | \"skip\";\n  message: string;\n  details?: string[];\n};\n\ntype ConfigCheckOutput = {\n  result: CheckResult;\n  config: ProjectConfig | null;\n};\n\n/**\n * Which state the config these rows describe is in. `detectInstallation` answers \"is there an\n * installation here\", not \"is there a config here\", and hands back the same `null` for an absent\n * file and for one that loads while declaring neither skills nor agents — two states that need\n * different sentences. The state missing from this union is the one that cannot reach this layer:\n * a config that cannot be READ is the content layer's finding, and it skips the operational layer.\n *\n * A loaded config says whether it is this directory's own or the global one it inherits: a\n * directory with no config of its own under a global installation reads the global config, and a\n * row naming this directory's path for it describes a file that is not there.\n */\ntype ConfigState =\n  | { kind: \"absent\" }\n  | { kind: \"declares-nothing\"; config: ProjectConfig }\n  | { kind: \"loaded\"; config: ProjectConfig; inherited: boolean };\n\n/**\n * The config in THIS directory, and what state it is in. Only this directory: the global fallback\n * is `detectInstallation`'s to make and it has already made it, so a project with no config of its\n * own is absent here whatever the home directory holds — `init` writes exactly the declares-nothing\n * shape as the blank global pair on every project setup, and it is not this project's config.\n *\n * The load cannot throw: `configDirsInPlay` is the same set the content layer just read, and any\n * failure in it skipped this layer entirely.\n */\nasync function resolveConfigState(\n  detected: DetectedProject | null,\n  projectDir: string,\n): Promise<ConfigState> {\n  if (detected?.config) {\n    return {\n      kind: \"loaded\",\n      config: detected.config,\n      inherited: inheritsTheGlobalConfig(detected.installation.projectDir, projectDir),\n    };\n  }\n\n  const loaded = await loadInstalledConfig(projectDir);\n  if (!loaded) return { kind: \"absent\" };\n\n  return declaresNoContent(loaded.config)\n    ? { kind: \"declares-nothing\", config: loaded.config }\n    : { kind: \"loaded\", config: loaded.config, inherited: false };\n}\n\n/** Whether the config detection read for `projectDir` is the home directory's, inherited. */\nfunction inheritsTheGlobalConfig(readFrom: string, projectDir: string): boolean {\n  return isHomeDirectory(readFrom) && !isHomeDirectory(projectDir);\n}\n\n/**\n * `projectDir` rather than a module-level constant for the path this reports about: a scope's\n * source folder depends on the provider read off its disk, so nothing about it exists at module\n * load, and every line below has to name the folder this project is ACTUALLY on.\n */\nfunction checkConfigValid(state: ConfigState, projectDir: string): ConfigCheckOutput {\n  const theConfig = (verdict: string) => configRowMessage(state, projectDir, verdict);\n  if (state.kind === \"absent\") {\n    return {\n      result: {\n        kind: \"config\",\n        status: \"fail\",\n        message: theConfig(\"not found\"),\n        details: [`Run '${CLI_INVOKE_COMMAND} init' to create a configuration`],\n      },\n      config: null,\n    };\n  }\n\n  // Not a fault and nothing to repair — the file is valid, it just has nothing in it. The config\n  // is still handed on: the rows below describe an empty install truthfully, where a `null` would\n  // have them all report `Skipped (config invalid)` about a config that is valid.\n  if (state.kind === \"declares-nothing\") {\n    return {\n      result: {\n        kind: \"config-empty\",\n        status: \"warn\",\n        message: theConfig(\"is valid but declares no skills and no agents\"),\n      },\n      config: state.config,\n    };\n  }\n\n  const { config } = state;\n  const validation = validateProjectConfig(config);\n\n  if (!validation.valid) {\n    return {\n      result: {\n        kind: \"config\",\n        status: \"fail\",\n        message: theConfig(\"has errors\"),\n        details: validation.errors,\n      },\n      config: null,\n    };\n  }\n\n  if (validation.warnings.length > 0) {\n    return {\n      result: {\n        kind: \"config\",\n        status: \"warn\",\n        message: theConfig(\"has warnings\"),\n        details: validation.warnings,\n      },\n      config,\n    };\n  }\n\n  return {\n    result: {\n      kind: \"config\",\n      status: \"pass\",\n      message: theConfig(\"is valid\"),\n    },\n    config,\n  };\n}\n\n/**\n * What a Config Valid row says, led by whose config it is: this project's, or the global\n * installation's — the nouns the Layout rows lead with.\n *\n * A directory with no config of its own under a global installation reads the global one, and the\n * row says so, naming the file it actually read rather than this directory's path for a file that\n * is not there.\n */\nfunction configRowMessage(state: ConfigState, projectDir: string, verdict: string): string {\n  if (state.kind === \"loaded\" && state.inherited)\n    return `${theInheritedConfig()}, which ${verdict}`;\n  return `${theOwnConfig(projectDir)} ${verdict}`;\n}\n\n/** `This project: .agents-inc/claude/config.ts`, or the global installation's from home. */\nfunction theOwnConfig(projectDir: string): string {\n  return `${scopeLabel(scopeOf(projectDir))}: ${configNamedFrom(projectDir)}`;\n}\n\n/** A project with no config of its own, and the global one it reads in its place. */\nfunction theInheritedConfig(): string {\n  return `${scopeLabel(\"project\")}: no ${STANDARD_FILES.CONFIG_TS}, using ${scopeNoun(\"global\")}'s (${configNamedFrom(os.homedir())})`;\n}\n\n/** The scope whose config a directory holds: the home directory's is the global one. */\nfunction scopeOf(dir: string): ScopeKind {\n  return isHomeDirectory(dir) ? \"global\" : \"project\";\n}\n\n/**\n * A config file as a row names it: relative to the project it belongs to, and from home for the\n * global one — named relative to a project, the global config is a file that project does not have.\n */\nfunction configNamedFrom(root: string): string {\n  const relPath = relativeConfigPath(root, providerInUse(root));\n  return isHomeDirectory(root) ? `~/${relPath}` : relPath;\n}\n\nasync function checkSkillsResolved(\n  config: ProjectConfig,\n  matrix: MergedSkillsMatrix,\n  projectDir: string,\n): Promise<CheckResult> {\n  // config.ts declares skills both directly and through the stack. A global-only\n  // install has a populated skills array and no stack at all, so keying this check\n  // off the stack alone would report \"No skills configured\" for a real install.\n  const excludedIds = effectivelyExcludedSkillIds(config.skills);\n  const stackIds = config.stack ? getStackSkillIds(config.stack) : [];\n  const uniqueSkills = unique([...stackIds, ...config.skills.map((s) => s.id)]).filter(\n    (id) => !excludedIds.has(id),\n  );\n\n  if (uniqueSkills.length === 0) {\n    return {\n      kind: \"skills\",\n      status: \"pass\",\n      message: \"No skills configured\",\n    };\n  }\n\n  const [localResult, globalResult] = await Promise.all([\n    discoverLocalSkills(projectDir),\n    !isHomeDirectory(projectDir) ? discoverLocalSkills(os.homedir()) : null,\n  ]);\n  const localSkillIds = new Set([\n    ...(localResult?.skills.map((s) => s.id) ?? []),\n    ...(globalResult?.skills.map((s) => s.id) ?? []),\n  ]);\n\n  const missingSkills = uniqueSkills.filter(\n    (skillId) => !(skillId in matrix.skills) && !localSkillIds.has(skillId),\n  );\n\n  if (missingSkills.length > 0) {\n    return {\n      kind: \"skills\",\n      status: \"fail\",\n      message: `${ratio(uniqueSkills.length - missingSkills.length, uniqueSkills.length, \"skill\")} found`,\n      details: missingSkills.map((s) => `- ${s} (not found)`),\n    };\n  }\n\n  return {\n    kind: \"skills\",\n    status: \"pass\",\n    message: `${ratio(uniqueSkills.length, uniqueSkills.length, \"skill\")} found`,\n  };\n}\n\n/**\n * Whether every configured sub-agent is compiled where its own host reads it.\n *\n * **Two things here were Claude's and are the host's**, and both were found by running the\n * command on a healthy Codex installation rather than by reading it:\n *\n * - the FILENAME was `${name}.md`. Claude reads `.md` and Codex reads `.toml`, so on Codex this\n *   looked for a file no release will ever write. {@link agentCodec} answers the extension, and\n *   this is the extension ban's own census in action — the eslint config leaves `.md` unbanned\n *   precisely because product modules like this one still spell it.\n * - the VERDICT was \"needs recompilation\", for a sub-agent {@link hostCompilesAgent} says this\n *   host does not carry at all. Recompiling writes nothing, so the row asked for a remedy that\n *   does not exist and turned an install working exactly as this release intends into a warning.\n *   With C5 that is no longer a whole provider but two named sub-agents — `agent-summoner` and\n *   `skill-summoner`, which Codex leaves out for v1 — so the row names them rather than the host.\n *\n * The host is read per SCOPE, the way `resolveInstallPaths` reads it beside this: two scopes can\n * be on two providers, and one answer for both is how a row reports about the wrong installation.\n */\nasync function checkAgentsCompiled(\n  config: ProjectConfig,\n  projectDir: string,\n): Promise<CheckResult> {\n  const agents = config.agents;\n\n  if (agents.length === 0) {\n    return {\n      kind: \"agents\",\n      status: \"pass\",\n      message: \"No agents configured\",\n    };\n  }\n\n  const hosts = {\n    global: providerInUse(installBaseDir(projectDir, \"global\")),\n    project: providerInUse(installBaseDir(projectDir, \"project\")),\n  };\n  const dirs = {\n    global: resolveInstallPaths(projectDir, \"global\").agentsDir,\n    project: resolveInstallPaths(projectDir, \"project\").agentsDir,\n  };\n\n  const agentChecks = await Promise.all(\n    agents.map((agent) => agentCompileCheck(agent, hosts, dirs)),\n  );\n\n  const unrenderable = agentChecks.filter((c) => c.state === \"unrenderable\");\n  const missingAgents = agentChecks.filter((c) => c.state === \"missing\").map((c) => c.name);\n\n  // The no-renderer answer leads when it is the whole story, because then nothing is wrong and\n  // nothing can be done: a `warn` here would make every `doctor` on a Codex installation read as\n  // a fault report about the one thing this release has already said it does not do yet. The\n  // providers come off the rows themselves rather than off both scopes, so a project on one host\n  // under a global on another names only the host whose sub-agents this is about.\n  if (unrenderable.length === agents.length) {\n    const hostsLeavingThemOut = unique(unrenderable.map((a) => a.provider)).join(\" or \");\n    return {\n      kind: \"agents\",\n      status: \"pass\",\n      message: `No sub-agent in this configuration is carried by ${hostsLeavingThemOut}`,\n      details: unrenderable.map((a) => `- ${a.name} (left out of ${a.provider})`),\n    };\n  }\n\n  if (missingAgents.length > 0) {\n    return {\n      kind: \"agents\",\n      status: \"warn\",\n      message: `${missingAgents.length} agent${missingAgents.length === 1 ? \"\" : \"s\"} need${missingAgents.length === 1 ? \"s\" : \"\"} recompilation`,\n      details: missingAgents.map((a) => `- ${a} (missing)`),\n    };\n  }\n\n  const renderable = agents.length - unrenderable.length;\n  return {\n    kind: \"agents\",\n    status: \"pass\",\n    message: `${ratio(renderable, renderable, \"agent\")} compiled`,\n  };\n}\n\n/** One configured sub-agent as the Agents Compiled row sees it, and the host that decided it. */\ntype AgentCompileCheck = {\n  name: AgentName;\n  provider: Provider;\n  state: \"unrenderable\" | \"compiled\" | \"missing\";\n};\n\n/**\n * Whether one sub-agent is left out by its scope's host, or else compiled or missing where that\n * host reads it — the extension and the directory are both the host's.\n */\nasync function agentCompileCheck(\n  agent: AgentScopeConfig,\n  hosts: Record<SkillScope, Provider>,\n  agentsDirs: Record<SkillScope, string>,\n): Promise<AgentCompileCheck> {\n  const provider = hosts[agent.scope];\n  if (!hostCompilesAgent(provider, agent.name)) {\n    return { name: agent.name, provider, state: \"unrenderable\" };\n  }\n\n  const file = `${agent.name}${agentCodec(provider).extension}`;\n  const compiled = await fileExists(path.join(agentsDirs[agent.scope], file));\n  return { name: agent.name, provider, state: compiled ? \"compiled\" : \"missing\" };\n}\n\nasync function checkNoOrphans(config: ProjectConfig, projectDir: string): Promise<CheckResult> {\n  // The host's own agent files — `*.toml` roles on Codex, where a `*.md`-only listing found no\n  // compiled agent and so no orphan either (the CLI-896 class, 2026-09-27).\n  const codec = agentCodec(providerInUse(projectDir));\n  const projectAgentsDir = resolveInstallPaths(projectDir, \"project\").agentsDir;\n  const globalAgentsDir = resolveInstallPaths(projectDir, \"global\").agentsDir;\n\n  // At home scope both scopes resolve to the same agents directory, so it is\n  // listed once and its files are matched against both scopes' known names.\n  const scopesShareAgentsDir = isHomeDirectory(projectDir);\n\n  const [projectExists, globalExists] = await Promise.all([\n    directoryExists(projectAgentsDir),\n    !scopesShareAgentsDir ? directoryExists(globalAgentsDir) : false,\n  ]);\n\n  if (!projectExists && !globalExists) {\n    return {\n      kind: \"orphans\",\n      status: \"pass\",\n      message: \"No agents directory\",\n    };\n  }\n\n  const projectMdFiles = projectExists ? await listAgentFilesOf(projectAgentsDir, codec) : [];\n  const globalMdFiles = globalExists ? await listAgentFilesOf(globalAgentsDir, codec) : [];\n\n  // Project files: only active project-scoped agents should have .md files here\n  const activeProjectAgents: Set<string> = new Set(\n    config.agents.filter((a) => a.scope === \"project\" && !a.excluded).map((a) => a.name),\n  );\n  // Global files: all global-scoped agents (including excluded) still serve other projects\n  const knownGlobalAgents: Set<string> = new Set(\n    config.agents.filter((a) => a.scope === \"global\").map((a) => a.name),\n  );\n\n  const knownProjectDirAgents = scopesShareAgentsDir\n    ? new Set([...activeProjectAgents, ...knownGlobalAgents])\n    : activeProjectAgents;\n\n  const orphanedFiles = [\n    ...orphanedAgentNames(projectMdFiles, knownProjectDirAgents, codec),\n    ...orphanedAgentNames(globalMdFiles, knownGlobalAgents, codec),\n  ];\n\n  if (orphanedFiles.length > 0) {\n    return {\n      kind: \"orphans\",\n      status: \"warn\",\n      message: plural(orphanedFiles.length, \"orphaned agent file\"),\n      details: orphanedFiles.map((f) => `- ${f}.md (not in config)`),\n    };\n  }\n\n  return {\n    kind: \"orphans\",\n    status: \"pass\",\n    message: \"No orphaned agent files\",\n  };\n}\n\n/**\n * The agents whose compiled `.md` sits in a directory whose roster does not name them. The\n * roster differs per directory — a project directory knows only its own active agents, the\n * global one knows every global-scoped agent including the excluded — so it is a parameter.\n */\nfunction orphanedAgentNames(\n  mdFiles: string[],\n  knownAgents: ReadonlySet<string>,\n  codec: AgentCodec,\n): string[] {\n  return mdFiles\n    .map((fileName) => path.basename(fileName, codec.extension))\n    .filter((agentName) => !knownAgents.has(agentName));\n}\n\n/**\n * The same row when there is no configuration at all. Ownership is not unknown here, it is\n * settled: nothing declares any of it, so every artefact this CLI can prove it wrote is an\n * orphan and the row names it. What it CANNOT prove it wrote is left out — a skill directory\n * with no `forkedFrom` and an agent file with no provenance marker are somebody's own work,\n * and naming them here would offer `uninstall` files that command declines. See\n * {@link listInstalledArtifacts}, which asks exactly that question on both axes.\n *\n * A `fail`, where a stray file beside a config is a warning: that warning is earned by the next\n * `compile` pruning what it names, and nothing prunes these unattended. `compile` and `edit`\n * refuse without a config; `uninstall` does not need one, identifying skill directories by\n * their own `forkedFrom` and compiled agents by the marker each carries, which is why the tip\n * beneath this row can promise both halves.\n *\n * With nothing installed the row keeps the skip it has always printed. An empty directory with\n * no config is the state `init` exists for — there is nothing for a configuration to have owned.\n */\nasync function checkUnownedInstallation(projectDir: string): Promise<CheckResult> {\n  const { skills, agents } = await listInstalledArtifacts(projectDir);\n  if (skills.length === 0 && agents.length === 0) return skippedResult(\"orphans\");\n\n  return {\n    kind: \"orphans-unowned\",\n    status: \"fail\",\n    // The per-line \"(not in config)\" the other verdict repeats is said once here instead:\n    // with no configuration it is true of every line, and there are as many lines as files.\n    message: `${countedArtifacts(skills, agents)} installed here, and no configuration declares them`,\n    details: [...skills, ...agents].map((artifact) => `- ${artifact}`),\n  };\n}\n\n/** \"1/1 skill\", \"2/3 skills\" — the noun agrees with the count it is out of. */\nfunction ratio(found: number, total: number, noun: string): string {\n  return `${found}/${plural(total, noun)}`;\n}\n\n/** \"7 skills and 2 agents\", dropping a half with nothing in it rather than saying \"0 agents\". */\nfunction countedArtifacts(skills: string[], agents: string[]): string {\n  return [\n    ...(skills.length > 0 ? [plural(skills.length, \"skill\")] : []),\n    ...(agents.length > 0 ? [plural(agents.length, \"agent\")] : []),\n  ].join(\" and \");\n}\n\n/**\n * Whether every eject-mode skill the configuration names is on disk where its own host reads it.\n *\n * **It composed `<scope root>/.claude/skills/<id>/SKILL.md` for every provider until\n * 2026-09-22**, which made a healthy Codex installation report every one of its skills missing\n * and told the reader to look in a directory that installation does not have. The write path had\n * already moved through the layout — `copyLocalSkills` writes `$CODEX_HOME/skills` and\n * `<repo>/.agents/skills` — so this row was the half that stayed behind, and it is the kind of\n * defect the host-path lint ban cannot report: the path was composed from a CONSTANT, and that\n * ban matches literals.\n *\n * The directory is asked per SKILL rather than once for the row, because scope decides it and a\n * configuration mixes scopes freely. The reader is told the directory that was actually looked\n * in, for the same reason — one sentence naming one folder cannot be true of two scopes on two\n * different hosts.\n */\nasync function checkSkillsInstalled(\n  config: ProjectConfig,\n  projectDir: string,\n): Promise<CheckResult> {\n  const skills: SkillConfig[] = config.skills;\n  const ejectSkills = skills.filter((s) => s.origin === EJECT_SOURCE);\n\n  if (ejectSkills.length === 0) {\n    return {\n      kind: \"installed\",\n      status: \"pass\",\n      message: \"No eject-mode skills configured\",\n    };\n  }\n\n  const skillChecks = await Promise.all(\n    ejectSkills.map((skill) => ejectedSkillCheck(skill, projectDir)),\n  );\n  const missingSkills = skillChecks.filter((c) => !c.installed);\n\n  if (missingSkills.length > 0) {\n    return {\n      kind: \"installed\",\n      status: \"warn\",\n      message: `${plural(missingSkills.length, \"skill\")} missing from disk`,\n      details: missingSkills.map((s) => `- ${s.id} (not found in ${s.lookedIn}/)`),\n    };\n  }\n\n  return {\n    kind: \"installed\",\n    status: \"pass\",\n    message: `${ratio(ejectSkills.length, ejectSkills.length, \"eject-mode skill\")} installed`,\n  };\n}\n\n/** One eject-mode skill as the Skills Installed row sees it, and where it was looked for. */\ntype EjectedSkillCheck = { id: SkillId; installed: boolean; lookedIn: string };\n\n/**\n * Whether one eject-mode skill's `SKILL.md` is where its scope's host reads it.\n *\n * The provider is read off the scope's OWN root, the way `resolveInstallPaths` and\n * `discoverLocalProjectSkills` read it: two scopes can be on two different providers, and one\n * probe per skill is what keeps the directory and the reported prefix naming one of them.\n */\nasync function ejectedSkillCheck(\n  skill: SkillConfig,\n  projectDir: string,\n): Promise<EjectedSkillCheck> {\n  const provider = providerInUse(installBaseDir(projectDir, skill.scope));\n  const dir = skillsDir(provider, skill.scope, projectDir);\n  const installed = await fileExists(path.join(dir, skill.id, STANDARD_FILES.SKILL_MD));\n\n  return {\n    id: skill.id,\n    installed,\n    lookedIn: skillsPathPrefix(provider, skill.scope, projectDir),\n  };\n}\n\n/**\n * Plugin-mode skills have no files under `.claude/skills/` — they live in the\n * Claude plugin registry. Verifying them means asking the registry for the scope\n * each skill was installed at, not looking on disk.\n */\nasync function checkPluginSkillsInstalled(\n  config: ProjectConfig,\n  projectDir: string,\n): Promise<CheckResult> {\n  const pluginSkills: SkillConfig[] = config.skills.filter((s) => s.origin !== EJECT_SOURCE);\n\n  if (pluginSkills.length === 0) {\n    return {\n      kind: \"plugins\",\n      status: \"pass\",\n      message: \"No plugin-mode skills configured\",\n    };\n  }\n\n  const baseDirs = unique(pluginSkills.map((s) => installBaseDir(projectDir, s.scope)));\n  const missingPerBaseDir = await Promise.all(\n    baseDirs.map(async (baseDir) => {\n      const installedIds = new Set(\n        (await getVerifiedPluginInstallPaths(baseDir)).map((plugin) =>\n          parseMarketplacePluginRef(plugin.pluginKey),\n        ),\n      );\n      return pluginSkills\n        .filter((skill) => installBaseDir(projectDir, skill.scope) === baseDir)\n        .filter((skill) => !installedIds.has(skill.id))\n        .map((skill) => skill.id);\n    }),\n  );\n  const missingSkills = missingPerBaseDir.flat();\n\n  if (missingSkills.length > 0) {\n    return {\n      kind: \"plugins\",\n      status: \"warn\",\n      message: `${plural(missingSkills.length, \"skill\")} not installed as plugins`,\n      details: missingSkills.map((s) => `- ${s} (no enabled plugin found)`),\n    };\n  }\n\n  return {\n    kind: \"plugins\",\n    status: \"pass\",\n    message: `${ratio(pluginSkills.length, pluginSkills.length, \"plugin-mode skill\")} installed`,\n  };\n}\n\n/**\n * How a marketplace came to be the one this run reads, in the words each rung earns.\n *\n * The `default` sentence is the one that had to exist. With no configuration anywhere the resolver\n * falls back to the public catalogue and this check FETCHES it, so the report a bare directory gets\n * describes a network round trip to a marketplace nobody named — which is the row doing its job,\n * since reachability is its whole subject, and it was doing it without saying so. The other four\n * rungs are here because the map is exhaustive against the union rather than a default with\n * exceptions; `doctor` takes no marketplace flag and reads no environment variable, so it reaches\n * the first two through nothing today.\n */\nconst MARKETPLACE_CHOSEN_BY = {\n  flag: \"named by this run\",\n  env: `named by ${SOURCE_ENV_VAR}`,\n  project: \"named by this project's configuration\",\n  global: \"named by the global configuration\",\n  default: \"nothing here names one, so this is the default\",\n} as const satisfies Record<ResolvedConfig[\"sourceOrigin\"], string>;\n\n/** How this run got hold of that marketplace — off disk, or over the wire. */\nfunction howItWasReached(source: string, isLocal: boolean): string {\n  return isLocal ? `Read ${source} from disk` : `Fetched ${source} over the network`;\n}\n\n/**\n * The row for a marketplace this run did reach.\n *\n * `message` names where the skills were read FROM, which for a remote marketplace is the cache\n * directory it was unpacked into; the provenance line beneath it names the marketplace itself.\n * Both, because neither answers the other's question: a cache path says nothing about whose\n * catalogue it holds, and a ref says nothing about what is on disk to inspect.\n *\n * The count is what that marketplace carries, not the matrix this run loaded: the matrix also\n * holds the skills ejected here and the global installation's, which may come from another\n * marketplace altogether.\n */\nfunction reachedMarketplace(result: SourceLoadResult): CheckResult {\n  const { source, sourceOrigin } = result.sourceConfig;\n  const skillCount = result.marketplaceSkillIds.size;\n  const sourceLabel = result.isLocal ? \"local\" : \"remote\";\n\n  return {\n    kind: \"source\",\n    status: \"pass\",\n    message: `Connected to ${sourceLabel}: ${result.sourcePath}`,\n    details: [\n      `${plural(skillCount, \"skill\")} available`,\n      `${howItWasReached(source, result.isLocal)} — ${MARKETPLACE_CHOSEN_BY[sourceOrigin]}`,\n    ],\n  };\n}\n\nasync function checkSourceReachable(projectDir: string): Promise<CheckResult> {\n  try {\n    const { sourceResult } = await loadSource({ projectDir });\n    return reachedMarketplace(sourceResult);\n  } catch (error) {\n    const message = getErrorMessage(error);\n    return {\n      kind: \"source\",\n      status: \"fail\",\n      message: \"Failed to load marketplace\",\n      details: [message],\n    };\n  }\n}\n\ntype ContentCheck = {\n  kind: CheckKind;\n  name: string;\n  noun: string;\n  run: (projectDir: string) => Promise<ContentValidation>;\n};\n\n/**\n * A content check plus the two gates it owns: whether it reads config.ts to know WHAT to validate\n * (see {@link CONFIG_CHECK}), and which operational rows its errors stand down.\n *\n * `blocks` names only the rows that READ what this pass validates, so their own verdict would be\n * this pass's finding in the row's words. A row absent from every `blocks` list reads none of the\n * content on disk and answers as truthfully as ever — an error here is not its business.\n */\ntype GatedContentCheck = ContentCheck & {\n  readsConfig: boolean;\n  blocks: readonly CheckKind[];\n};\n\n/**\n * The config file every other check is read against, so it is validated before any of them and\n * on its own: a file that exists and cannot be parsed is a finding about that file, and every\n * row underneath would be a cascade of it. It carries no gate of its own — it IS the gate.\n */\nconst CONFIG_CHECK: ContentCheck = {\n  kind: \"content-config\",\n  name: \"Config\",\n  noun: \"config\",\n  run: validateProjectConfigFile,\n};\n\n/**\n * The content layer: schema and file-level validation of what is on disk. It runs before the\n * operational layer so that a row whose inputs this layer has already reported broken can stand\n * down rather than re-report the same fault as a finding of its own.\n */\nconst CONTENT_CHECKS: GatedContentCheck[] = [\n  {\n    kind: \"content-sources\",\n    name: \"Marketplaces\",\n    noun: \"marketplace\",\n    // The registered marketplaces are the ones config.ts names.\n    readsConfig: true,\n    // A marketplace whose content is broken is missing skills from the matrix every configured\n    // id is resolved against, so the skills row would call ids \"not found\" that this row has\n    // already accounted for.\n    blocks: [\"skills\"],\n    run: validateRegisteredSources,\n  },\n  {\n    kind: \"content-plugins\",\n    name: \"Plugins\",\n    noun: \"plugin\",\n    readsConfig: false,\n    // `resolvePluginInstallPaths` swallows a registry it cannot parse and returns none, so every\n    // plugin-mode skill would read \"no enabled plugin found\" — the registry's finding, once per\n    // configured skill, wearing the row's words.\n    blocks: [\"plugins\"],\n    run: validateInstalledPlugins,\n  },\n  {\n    kind: \"content-skills\",\n    name: \"Skills\",\n    noun: \"skill\",\n    // `~/.claude/skills/` is shared with everything else that installs a skill there, so which of\n    // its directories are this installation's is a question only the config can answer for the\n    // ones carrying no provenance marker. A config nobody can read leaves that unanswerable.\n    readsConfig: true,\n    // `extractLocalSkill` DROPS a skill whose metadata.yaml is missing or unusable, so a \"not\n    // found\" from the skills row would be this finding re-worded.\n    blocks: [\"skills\"],\n    run: validateInstalledSkills,\n  },\n  {\n    kind: \"content-agents\",\n    name: \"Agents\",\n    noun: \"agent\",\n    readsConfig: false,\n    // Nothing downstream opens an agent .md. `Agents Compiled` asks whether the file is there and\n    // `No Orphans` reads the names of the files that are — broken frontmatter changes neither.\n    blocks: [],\n    run: validateInstalledAgents,\n  },\n];\n\nfunction contentStatus(errors: number, warnings: number): CheckResult[\"status\"] {\n  if (errors > 0) return \"fail\";\n  if (warnings > 0) return \"warn\";\n  return \"pass\";\n}\n\nfunction contentMessage(noun: string, count: number, errors: number, warnings: number): string {\n  // A pass that walked nothing can still report an issue — an unreadable plugin\n  // registry is a finding about the directory, not about a plugin inside it.\n  if (errors === 0 && warnings === 0) {\n    return count === 0 ? `No ${noun}s to validate` : `${plural(count, noun)} validated`;\n  }\n  return `${plural(count, noun)}: ${plural(errors, \"error\")}, ${plural(warnings, \"warning\")}`;\n}\n\nfunction formatContentIssue(issue: ContentIssue): string {\n  const marker = issue.severity === \"error\" ? \"ERROR\" : \"WARN\";\n  return `- [${marker}] ${issue.file}: ${issue.message}`;\n}\n\nfunction toContentResult(check: ContentCheck, validation: ContentValidation): CheckResult {\n  const errors = validation.issues.filter((issue) => issue.severity === \"error\").length;\n  const warnings = validation.issues.length - errors;\n\n  return {\n    kind: check.kind,\n    status: contentStatus(errors, warnings),\n    message: contentMessage(check.noun, validation.count, errors, warnings),\n    details: [\n      ...validation.notes.map((note) => `- ${note}`),\n      ...validation.issues.map(formatContentIssue),\n    ],\n  };\n}\n\n/**\n * The column every row's status symbol starts at. It has to clear the longest row name\n * the report prints — \"Marketplace Reachable\", 21 characters — or that row's name runs\n * straight into its own tick with no gap.\n */\nconst CHECK_WIDTH = 24;\n\n/** Section headings and the rows underneath them are indented one step apart. */\nconst SECTION_INDENT = \"  \";\nconst ROW_INDENT = \"    \";\n\nconst SECTION_CONTENT = \"Content checks\";\nconst SECTION_OPERATIONAL = \"Operational checks\";\nconst SKIP_NO_INSTALLATION = \"Skipped — no installation here (marketplace repository)\";\nconst SKIP_CONFIG_UNREADABLE = \"Skipped — the configuration that names them cannot be read\";\n\n/**\n * The whole operational layer standing down, for the one content finding that leaves every row\n * with nothing to say: a config nobody can read. It still says \"errors\" rather than naming that\n * file, because the config row is one of them and whatever else failed is above it too.\n */\nconst SKIP_AFTER_CONFIG_ERROR = \"Skipped — fix the content errors above first\";\n\n/**\n * The sentence a single row stands down with. Unlike its neighbours it names the finding rather\n * than the layer: which pass blocked it is the one thing separating a row that cannot answer from\n * the ones printing verdicts beside it.\n */\nfunction skipRestatingContent(nouns: string[]): string {\n  return `Skipped — this row would only restate the ${nouns.join(\" and \")} errors above`;\n}\n\nfunction formatCheckName(name: string): string {\n  return name.padEnd(CHECK_WIDTH);\n}\n\n/**\n * The glyph each row is headed with, every one of them from {@link UI_SYMBOLS}.\n *\n * The last two used to be literals here — `\"!\"` and `\"-\"` — and the second was the one that\n * mattered: `UI_SYMBOLS.SKIPPED` is an EN-DASH, so a stood-down row printed a different character\n * from the one the symbol table declares for exactly that state, while `UI_SYMBOLS.REMOVED` is\n * deliberately an ASCII hyphen for diff markers. Two glyphs a reader cannot tell apart, meaning\n * opposite things, and nothing pointing either literal at the table it belonged in.\n */\nfunction formatStatus(status: CheckResult[\"status\"]): string {\n  switch (status) {\n    case \"pass\":\n      return UI_SYMBOLS.CHECK;\n    case \"fail\":\n      return UI_SYMBOLS.CROSS;\n    case \"warn\":\n      return UI_SYMBOLS.DISCOURAGED;\n    case \"skip\":\n      return UI_SYMBOLS.SKIPPED;\n    default: {\n      const _exhaustive: never = status;\n      return _exhaustive;\n    }\n  }\n}\n\n/** The column a row's details start at, under its message. */\nconst DETAIL_INDENT = `${ROW_INDENT}${\" \".repeat(CHECK_WIDTH)}   `;\n\nfunction formatCheckLine(name: string, result: CheckResult): string[] {\n  const headerLine = `${ROW_INDENT}${formatCheckName(name)}${formatStatus(result.status)}  ${result.message}`;\n  const detailLines = (result.details ?? []).flatMap(indentedDetailLines);\n  return [headerLine, ...detailLines];\n}\n\n/**\n * A detail can be a whole refusal — a loader's message, paragraphs and all — so every one of its\n * lines is indented, and its blank lines dropped. Indenting the first alone printed the rest at\n * column 0, outside the row they belong to and between the rows below it.\n */\nfunction indentedDetailLines(detail: string): string[] {\n  return detail\n    .split(\"\\n\")\n    .filter((line) => line !== \"\")\n    .map((line) => `${DETAIL_INDENT}${line}`);\n}\n\nfunction formatSummary(results: CheckResult[]): string {\n  const counts = countBy(results, (r) => r.status);\n\n  const parts = [\n    `${counts.pass ?? 0} passed`,\n    plural(counts.warn ?? 0, \"warning\"),\n    plural(counts.fail ?? 0, \"error\"),\n  ];\n\n  return `${SECTION_INDENT}Summary: ${parts.join(\", \")}`;\n}\n\nconst TIPS: Array<{ kind: CheckKind; status: CheckResult[\"status\"]; tip: string }> = [\n  {\n    kind: \"agents\",\n    status: \"warn\",\n    tip: `  Tip: Run '${CLI_INVOKE_COMMAND} compile' to generate missing agent files`,\n  },\n  {\n    kind: \"config\",\n    status: \"fail\",\n    tip: `  Tip: Run '${CLI_INVOKE_COMMAND} init' to create or fix configuration`,\n  },\n  {\n    // The remedy for a valid config with nothing in it. Not the tip above: there is nothing to\n    // create and nothing to fix. `init` on this config opens the wizard rather than the dashboard\n    // — that is what the detection returning null is FOR — so it is the way to fill it in.\n    kind: \"config-empty\",\n    status: \"warn\",\n    tip: `  Tip: Nothing is configured yet — run '${CLI_INVOKE_COMMAND} init' to choose skills and sub-agents`,\n  },\n  {\n    // Printed beside the config tip above, which says how to get a configuration back and\n    // nothing about the files that outlived the old one. Both halves are named with what they\n    // actually do: `uninstall` matches skill directories by their own `forked-from` metadata and\n    // compiled agents by the marker each one carries, so neither needs the configuration that is\n    // gone — which is why the row can name both and this tip can promise both.\n    kind: \"orphans-unowned\",\n    status: \"fail\",\n    tip: `  Tip: Nothing declares the files above — '${CLI_INVOKE_COMMAND} init' writes a configuration that can own them again, or '${CLI_INVOKE_COMMAND} uninstall' removes them, the compiled agents included: each file listed carries this CLI's own provenance, which is what that command reads when there is no configuration left`,\n  },\n  {\n    kind: \"skills\",\n    status: \"fail\",\n    tip: \"  Tip: Check skill IDs in config match available skills\",\n  },\n  {\n    kind: \"installed\",\n    status: \"warn\",\n    // No command is named on purpose: 'eject skills --force' re-copies every skill in the\n    // marketplace and always targets project scope, so it cannot repair a global-scoped\n    // skill and it litters a plugin-mode project with local skill directories.\n    tip: \"  Tip: Re-eject the missing skills from the marketplace to restore their files\",\n  },\n];\n\nfunction formatTips(results: CheckResult[]): string[] {\n  return TIPS.filter((t) => results.some((r) => r.kind === t.kind && r.status === t.status)).map(\n    (t) => t.tip,\n  );\n}\n\n/**\n * The one remedy that applies to a config that cannot be read, once per such config, naming the\n * folder it is taken from. `init` does not clear such a file — it refuses it — so the config tip\n * would send the reader in a circle; this is the way out every refusing command names, worded the\n * same way and sending the reader to the same folder: the project, or the home directory for the\n * global config.\n *\n * Read again rather than threaded out of the content pass, and only once that pass has failed. A\n * failure it cannot classify is already that pass's own failed row, so it adds no tip of its own.\n */\nasync function recreateConfigTips(\n  contentResults: CheckResult[],\n  projectDir: string,\n): Promise<string[]> {\n  if (!failedContentKinds(contentResults).has(CONFIG_CHECK.kind)) return [];\n\n  const failures = await findConfigLoadFailures(projectDir).catch(() => []);\n  return failures.map(\n    (failure) =>\n      `  Tip: There is no automatic repair — recreate the configuration by running ${recreateConfigFrom(failure.scopeRoot)}`,\n  );\n}\n\n/** The row name every Layout row is printed under, one per scope. */\nconst LAYOUT_ROW_NAME = \"Layout\";\n\n/** One scope's Layout row: which folder its installation is read from and written to. */\nfunction toLayoutResult(scope: SourceScope): CheckResult {\n  return {\n    kind: \"layout\",\n    status: \"pass\",\n    message: layoutIsCurrent(scopeLabel(scope.kind), scope.relName),\n  };\n}\n\n/** The row name the placement and installation-ambiguity findings are printed under. */\nconst PLACEMENTS_ROW_NAME = \"Placements Offered\";\n\n/**\n * Whether this installation is one every other command will act on — as a ROW, not a throw.\n *\n * **It carries the two findings that make the rest of this report a claim about nothing.** A\n * configuration asking for a mode/scope cell its host does not offer is refused by `compile`,\n * `edit` and `update`; a scope holding an installation of each provider is refused by `edit`,\n * `uninstall`, `share` and `eject`. Until this row existed, `doctor` — the one command whose job\n * is saying whether an installation is healthy — walked straight past both and pronounced a clean\n * bill of health on a configuration no command would touch. A diagnostic that disagrees with every\n * command it is diagnosing is worse than a missing one.\n *\n * **It reports and never refuses**: a command that changes nothing must not refuse to LOOK,\n * because this is exactly the state a user needs to see in order to fix it.\n *\n * The message is the refusal's own, word for word, off the same host roster — so what a user is\n * told here and what they are told when `compile` stops are one sentence, not two that agree\n * today.\n *\n * **The summary counts FINDINGS, and said \"unusable installation\" until 2026-09-22.** The two\n * are not the same number in either direction: one installation with an unofferable placement AND\n * an ambiguous folder contributes two findings, while the ambiguity finding is itself about a\n * scope holding two installations. A count of one noun printed over a list of another is a\n * sentence a reader cannot check against the lines underneath it.\n */\nasync function checkOfferedPlacements(projectDir: string): Promise<CheckResult> {\n  const findings = await everythingThatWouldStopACommandActing(projectDir);\n\n  if (findings.length === 0) {\n    return { kind: \"placements\", status: \"pass\", message: \"Every configured skill is placeable\" };\n  }\n\n  return {\n    kind: \"placements\",\n    status: \"fail\",\n    message: `${plural(findings.length, \"finding\")} would stop a command acting here`,\n    details: findings.map((finding) => `- ${finding}`),\n  };\n}\n\n/**\n * The two findings a command would stop on, in one list: a placement no host can fill, and a scope\n * holding an installation of each provider.\n *\n * Asked together rather than in sequence because neither answer depends on the other, and reported\n * together because they are one question for a user — \"will anything act on this?\" — with two ways\n * of being answered no.\n */\nasync function everythingThatWouldStopACommandActing(projectDir: string): Promise<string[]> {\n  const [unofferable, ambiguous] = await Promise.all([\n    unofferablePlacementsFound(projectDir),\n    ambiguityFinding(projectDir),\n  ]);\n\n  return ambiguous === null ? unofferable : [...unofferable, ambiguous];\n}\n\nfunction skippedResult(kind: CheckKind): CheckResult {\n  return { kind, status: \"skip\", message: \"Skipped (config invalid)\" };\n}\n\n/**\n * The skills row when the marketplace never loaded. Distinct from {@link skippedResult}: the\n * config is fine, and what is missing is the matrix to resolve its skills against.\n */\nfunction sourceUnreachableSkillsResult(): CheckResult {\n  return { kind: \"skills\", status: \"skip\", message: \"Skipped (marketplace unreachable)\" };\n}\n\nfunction skippedContentResult(kind: CheckKind): CheckResult {\n  return { kind, status: \"skip\", message: SKIP_CONFIG_UNREADABLE };\n}\n\n/** The content passes that failed this run — the set every operational row is gated against. */\nfunction failedContentKinds(contentResults: CheckResult[]): ReadonlySet<CheckKind> {\n  return new Set(contentResults.filter((r) => r.status === \"fail\").map((r) => r.kind));\n}\n\n/**\n * An operational row standing down because a content pass it reads through failed, naming what\n * blocked it. `null` — the answer for most rows on most runs — means nothing it reads is broken\n * and it can speak for itself.\n */\nfunction contentBlockedResult(\n  row: CheckKind,\n  failedContent: ReadonlySet<CheckKind>,\n): CheckResult | null {\n  const blockingNouns = CONTENT_CHECKS.filter((check) => failedContent.has(check.kind))\n    .filter((check) => check.blocks.includes(row))\n    .map((check) => check.noun);\n\n  if (blockingNouns.length === 0) return null;\n\n  return { kind: row, status: \"skip\", message: skipRestatingContent(blockingNouns) };\n}\n\nfunction runContentCheck(check: ContentCheck, projectDir: string): Promise<CheckResult> {\n  return safeCheck(check.kind, async () => toContentResult(check, await check.run(projectDir)));\n}\n\n/**\n * Wrap a check so a thrown exception becomes a `fail` result instead of crashing the\n * whole doctor run. Per-check isolation ensures one broken check does not mask others.\n */\nasync function safeCheck(kind: CheckKind, fn: () => Promise<CheckResult>): Promise<CheckResult> {\n  try {\n    return await fn();\n  } catch (error) {\n    return { kind, status: \"fail\", message: \"Check threw\", details: [getErrorMessage(error)] };\n  }\n}\n\nexport default class Doctor extends BaseCommand {\n  static summary = \"Diagnose common configuration issues\";\n\n  static description = `Run diagnostic checks on your ${DEFAULT_BRANDING.NAME} configuration to identify issues with config validity, skill resolution, agent compilation, and marketplace connectivity.`;\n\n  static examples = [\"<%= config.bin %> <%= command.id %>\"];\n\n  static flags = {};\n\n  async run(): Promise<void> {\n    await this.parse(Doctor);\n    const projectDir = process.cwd();\n\n    // The shared `verbose()` logger stays OFF, and nothing here switches it on. `doctor` used to,\n    // for the whole run — the mechanical residue of a `--verbose` flag whose removal was meant to\n    // make each row's own DETAILS unconditional, which `formatCheckLine` does on its own. What the\n    // logger added on top of that was the loaders' trace, spliced between the section headings and\n    // the rows they head: for a directory holding nothing, 27 lines of it, every one restating a\n    // row printed underneath it.\n    this.printHeader(await this.resolveBrandingName(projectDir));\n    const contentResults = await this.runContentChecks(projectDir);\n    const operationalResults = await this.runOperationalChecks(projectDir, contentResults);\n    const results = [...contentResults, ...operationalResults];\n\n    this.printResults(results, await recreateConfigTips(contentResults, projectDir));\n\n    if (results.some((r) => r.status === \"fail\")) {\n      this.exit(EXIT_CODES.ERROR);\n    }\n  }\n\n  private printHeader(brandingName: string): void {\n    this.log(\"\");\n    this.log(`${brandingName} Doctor`);\n    this.log(\"\");\n    this.log(`${SECTION_INDENT}Checking configuration health...`);\n    this.log(\"\");\n  }\n\n  /**\n   * The config is checked first and alone. A check that reads it to know what to validate would\n   * otherwise ask a file already reported as unreadable — and asking is what emitted the loader's\n   * own failure line once per read, spliced between these rows. Everything that walks installed\n   * content on disk still runs: it says something true whatever the config is in.\n   */\n  private async runContentChecks(projectDir: string): Promise<CheckResult[]> {\n    this.log(`${SECTION_INDENT}${SECTION_CONTENT}`);\n\n    const configResult = await runContentCheck(CONFIG_CHECK, projectDir);\n    const configUnreadable = configResult.status === \"fail\";\n\n    const rows = await Promise.all(\n      CONTENT_CHECKS.map(async (check) => ({\n        name: check.name,\n        result:\n          check.readsConfig && configUnreadable\n            ? skippedContentResult(check.kind)\n            : await runContentCheck(check, projectDir),\n      })),\n    );\n\n    const allRows = [{ name: CONFIG_CHECK.name, result: configResult }, ...rows];\n\n    for (const row of allRows) {\n      this.logCheck(row.name, row.result);\n    }\n\n    return allRows.map((row) => row.result);\n  }\n\n  /**\n   * The whole layer stands down for the two findings that leave every row with nothing to say: a\n   * config nobody can read — every row is read out of it, so all of them would be cascades of that\n   * one file — and a marketplace repository with nothing installed, where a marketplace author has\n   * no install for the layer to describe. Every other content error is scoped to the rows that\n   * read what it is about; {@link GatedContentCheck} says which those are, per pass.\n   */\n  private async runOperationalChecks(\n    projectDir: string,\n    contentResults: CheckResult[],\n  ): Promise<CheckResult[]> {\n    this.log(\"\");\n    this.log(`${SECTION_INDENT}${SECTION_OPERATIONAL}`);\n\n    const failedContent = failedContentKinds(contentResults);\n    if (failedContent.has(CONFIG_CHECK.kind)) {\n      this.log(`${ROW_INDENT}${SKIP_AFTER_CONFIG_ERROR}`);\n      return [];\n    }\n\n    const detected = await detectProject(projectDir);\n    if (!detected && (await this.isUninstalledSourceRepo(projectDir))) {\n      this.log(`${ROW_INDENT}${SKIP_NO_INSTALLATION}`);\n      return [];\n    }\n\n    const configState = await resolveConfigState(detected, projectDir);\n    return this.runAllChecks(projectDir, configState, failedContent);\n  }\n\n  /**\n   * A config file that exists but failed to load also detects as \"no project\", and\n   * that is a finding rather than an absence — so the skip requires no config file\n   * at all, not merely no usable one.\n   */\n  private async isUninstalledSourceRepo(projectDir: string): Promise<boolean> {\n    if (await fileExists(getInstalledConfigPath(projectDir))) return false;\n    return isSourceRepo(projectDir);\n  }\n\n  private async runAllChecks(\n    projectDir: string,\n    configState: ConfigState,\n    failedContent: ReadonlySet<CheckKind>,\n  ): Promise<CheckResult[]> {\n    const { result: configResult, config } = checkConfigValid(configState, projectDir);\n    this.logCheck(\"Config Valid\", configResult);\n\n    const layoutResults = await this.reportLayout(projectDir);\n\n    // Directly under Layout, and above every row that reads content: Layout says which FOLDER this\n    // report is about and this row says whether any command will act on what is in it.\n    const placementsResult = await safeCheck(\"placements\", () =>\n      checkOfferedPlacements(projectDir),\n    );\n    this.logCheck(PLACEMENTS_ROW_NAME, placementsResult);\n\n    // loadSource (called by checkSourceReachable) populates the matrix. Run it\n    // before checkSkillsResolved so skills lookups see a populated matrix; if\n    // source fails, skip skills rather than reporting false \"not found\" errors.\n    const sourceResult = await safeCheck(\"source\", () => checkSourceReachable(projectDir));\n\n    const filteredConfig = config ? filterExcludedEntries(config) : null;\n\n    const skillsResult = await this.resolveSkillsCheck(\n      config,\n      sourceResult,\n      projectDir,\n      failedContent,\n    );\n    this.logCheck(\"Skills Resolved\", skillsResult);\n\n    const agentsResult = filteredConfig\n      ? await safeCheck(\"agents\", () => checkAgentsCompiled(filteredConfig, projectDir))\n      : skippedResult(\"agents\");\n    this.logCheck(\"Agents Compiled\", agentsResult);\n\n    const orphansResult = await this.resolveOrphansCheck(config, configState, projectDir);\n    this.logCheck(\"No Orphans\", orphansResult);\n\n    const installedResult = filteredConfig\n      ? await safeCheck(\"installed\", () => checkSkillsInstalled(filteredConfig, projectDir))\n      : skippedResult(\"installed\");\n    this.logCheck(\"Skills Installed\", installedResult);\n\n    const pluginsResult = await this.resolvePluginsCheck(filteredConfig, projectDir, failedContent);\n    this.logCheck(\"Plugins Installed\", pluginsResult);\n\n    this.logCheck(\"Marketplace Reachable\", sourceResult);\n\n    return [\n      configResult,\n      ...layoutResults,\n      placementsResult,\n      skillsResult,\n      agentsResult,\n      orphansResult,\n      installedResult,\n      pluginsResult,\n      sourceResult,\n    ];\n  }\n\n  /**\n   * One `Layout` row per scope in play.\n   *\n   * Per scope rather than per machine: a project and the global installation are two\n   * installations, and one row for the two can only name one of their folders.\n   *\n   * Printed right under `Config Valid`, because every row below it is read out of a config file\n   * in the folder this row names.\n   */\n  private async reportLayout(projectDir: string): Promise<CheckResult[]> {\n    const rows = (await sourceScopesInPlay(projectDir)).map(toLayoutResult);\n\n    for (const row of rows) {\n      this.logCheck(LAYOUT_ROW_NAME, row);\n    }\n    return rows;\n  }\n\n  /**\n   * The orphan row, and which question it can answer. With a config it names the compiled\n   * agents that config does not; with no config at all every installed file is unowned and it\n   * names all of them. It skips for the one state left — a config that loads and fails\n   * validation — because there the file that says who owns what has already been rejected, and\n   * an installation must not be called stranded on the strength of one nobody can trust.\n   */\n  private async resolveOrphansCheck(\n    config: ProjectConfig | null,\n    configState: ConfigState,\n    projectDir: string,\n  ): Promise<CheckResult> {\n    if (config) return safeCheck(\"orphans\", () => checkNoOrphans(config, projectDir));\n    if (configState.kind === \"absent\") {\n      return safeCheck(\"orphans\", () => checkUnownedInstallation(projectDir));\n    }\n    return skippedResult(\"orphans\");\n  }\n\n  /**\n   * The skills row, and the three states in which it cannot be computed: no config to read the\n   * skills out of, content it resolves against that the layer above has already reported broken,\n   * and a marketplace that never loaded — so there is no populated matrix to resolve them\n   * against, and every configured skill would be reported \"not found\".\n   */\n  private async resolveSkillsCheck(\n    config: ProjectConfig | null,\n    sourceResult: CheckResult,\n    projectDir: string,\n    failedContent: ReadonlySet<CheckKind>,\n  ): Promise<CheckResult> {\n    if (!config) return skippedResult(\"skills\");\n\n    const blocked = contentBlockedResult(\"skills\", failedContent);\n    if (blocked) return blocked;\n    if (sourceResult.status === \"fail\") return sourceUnreachableSkillsResult();\n\n    return safeCheck(\"skills\", () => checkSkillsResolved(config, matrix, projectDir));\n  }\n\n  /**\n   * The plugin row, and the two states in which it cannot be computed: no config to read the\n   * plugin-mode skills out of, and a plugin registry the layer above could not parse — which\n   * resolves as no installs at all, so every configured skill would be reported missing.\n   */\n  private async resolvePluginsCheck(\n    config: ProjectConfig | null,\n    projectDir: string,\n    failedContent: ReadonlySet<CheckKind>,\n  ): Promise<CheckResult> {\n    if (!config) return skippedResult(\"plugins\");\n\n    const blocked = contentBlockedResult(\"plugins\", failedContent);\n    if (blocked) return blocked;\n\n    return safeCheck(\"plugins\", () => checkPluginSkillsInstalled(config, projectDir));\n  }\n\n  private logCheck(name: string, result: CheckResult): void {\n    for (const line of formatCheckLine(name, result)) {\n      this.log(line);\n    }\n  }\n\n  private printResults(results: CheckResult[], recreateTips: string[]): void {\n    this.log(\"\");\n    this.log(formatSummary(results));\n\n    const tips = [...formatTips(results), ...recreateTips];\n    if (tips.length > 0) {\n      this.log(\"\");\n      for (const tip of tips) {\n        this.log(tip);\n      }\n    }\n\n    this.log(\"\");\n  }\n}\n","import path from \"path\";\nimport { isRecord } from \"../utils/type-guards.js\";\nimport { parse as parseYaml } from \"yaml\";\nimport { z } from \"zod\";\nimport { glob, readFile, fileExists, directoryExists } from \"../utils/fs\";\nimport {\n  DIRS,\n  MARKETPLACE_JSON,\n  PLUGIN_MANIFEST_DIR,\n  SKILL_CATEGORIES_PATH,\n  SKILL_RULES_PATH,\n  SKILLS_DIR_PATH,\n  STACKS_FILE_PATH,\n  STANDARD_FILES,\n} from \"../consts\";\nimport {\n  agentYamlGenerationSchema,\n  metadataValidationSchema,\n  splitMetadataValidationIssues,\n  validateSkillMetadata,\n  skillCategoriesFileSchema,\n  skillRulesFileSchema,\n  stackConfigValidationSchema,\n  stacksConfigSchema,\n} from \"./schemas\";\nimport { parseFrontmatter } from \"./loading/loader\";\nimport { ConfigDefaultExportError, loadConfig, loadSourceRepoConfig } from \"./configuration\";\nimport { checkMatrixHealth, type MatrixHealthIssue } from \"./matrix\";\nimport {\n  loadSkillsMatrixFromSource,\n  MarketplaceManifestRequiredError,\n} from \"./loading/source-loader\";\nimport { MarketplaceNameRefusedError } from \"./loading/source-fetcher\";\nimport { matrix } from \"./matrix/matrix-provider\";\nimport { getErrorMessage } from \"../utils/errors\";\nimport { formatZodErrors } from \"./schema-validator\";\n\nexport type SourceValidationIssue = {\n  severity: \"error\" | \"warning\";\n  file: string;\n  message: string;\n};\n\nexport type SourceValidationResult = {\n  issues: SourceValidationIssue[];\n  skillCount: number;\n  errorCount: number;\n  warningCount: number;\n};\n\n/**\n * Who this report is for, relative to the marketplace it is about.\n *\n * You are the `\"author\"` of the marketplace being validated when it IS the directory the command\n * ran in; a marketplace anywhere else — fetched, or on disk at another path — is one you are only\n * a `\"consumer\"` of. Not \"is there a marketplace under the cwd\": that says nothing about the OTHER\n * marketplace a config may point at, and the severity turns on the per-marketplace question.\n *\n * It changes one finding. A slug a marketplace's rules dangle is a typo its author can fix and\n * wants the run to fail on, and it is a defect a consumer cannot touch in a file they cannot open\n * — while every skill still installs and still resolves. Whether the reader holds push rights is\n * not knowable here and is not the test: a checkout under your cursor is a file you can edit.\n */\nexport type MarketplaceReader = \"author\" | \"consumer\";\n\n/**\n * True when `dir` is itself a skills source repository — it carries the skills tree\n * `validateSource` walks, at `src/skills/` or wherever its own source config points.\n * A marketplace author's checkout answers yes; a consumer project answers no.\n */\nexport async function isSourceRepo(dir: string): Promise<boolean> {\n  // ABORT on an unreadable config, and it is caught rather than fatal at both callers: `doctor`\n  // reaches this through `safeCheck`, so the throw becomes a failed row instead of an aborted\n  // command, and its other caller asks only where no config file exists at all.\n  const sourceConfig = await loadSourceRepoConfig(dir);\n  return directoryExists(path.join(dir, sourceConfig?.skillsDir ?? SKILLS_DIR_PATH));\n}\n\n/** Checks if a key uses snake_case (has underscore between lowercase letters) */\nexport function isSnakeCase(key: string): boolean {\n  return /[a-z]_[a-z]/.test(key);\n}\n\n/**\n * Checks top-level keys for snake_case usage (camelCase is the convention).\n * Non-object input yields no issues.\n */\nexport function checkSnakeCaseKeys(rawMetadata: unknown, relPath: string): SourceValidationIssue[] {\n  if (!isRecord(rawMetadata)) return [];\n\n  return Object.keys(rawMetadata)\n    .filter(isSnakeCase)\n    .map((key) => ({\n      severity: \"error\" as const,\n      file: relPath,\n      message: `Key '${key}' uses snake_case — use camelCase instead`,\n    }));\n}\n\n/**\n * Warns when a skill directory's name does not equal the skill's machine id\n * (SKILL.md frontmatter `name`) — the key the loader registers the skill under.\n * Warning, not error: the loader still loads the skill by its id, but the\n * directory no longer signals which skill it contains.\n */\nexport function checkDirNameMatchesSkillId(\n  skillId: string,\n  relPath: string,\n  dirName: string,\n): SourceValidationIssue[] {\n  if (skillId === dirName) return [];\n  return [\n    {\n      severity: \"warning\",\n      file: relPath,\n      message: `Directory name '${dirName}' does not match skill id '${skillId}'`,\n    },\n  ];\n}\n\n/**\n * Reads a skill directory's SKILL.md frontmatter and checks the directory name\n * against the skill's machine id. When the id cannot be read (unreadable file or\n * missing/invalid frontmatter), reports that the check could not run.\n */\nasync function checkSkillDirName(\n  skillsDir: string,\n  skillsDirRelPath: string,\n  skillDir: string,\n): Promise<SourceValidationIssue[]> {\n  const dirName = path.basename(skillDir);\n  const skillMdRelPath = path.join(skillsDirRelPath, skillDir, STANDARD_FILES.SKILL_MD);\n\n  try {\n    const content = await readFile(path.join(skillsDir, skillDir, STANDARD_FILES.SKILL_MD));\n    const frontmatter = parseFrontmatter(content, skillMdRelPath);\n\n    if (frontmatter === null) {\n      return [\n        {\n          severity: \"warning\",\n          file: skillMdRelPath,\n          message: `Cannot verify directory name '${dirName}': missing or invalid ${STANDARD_FILES.SKILL_MD} frontmatter`,\n        },\n      ];\n    }\n\n    return checkDirNameMatchesSkillId(frontmatter.name, skillMdRelPath, dirName);\n  } catch (error) {\n    return [\n      {\n        severity: \"warning\",\n        file: skillMdRelPath,\n        message: `Cannot verify directory name '${dirName}': ${getErrorMessage(error)}`,\n      },\n    ];\n  }\n}\n\n/**\n * Finds missing SKILL.md / metadata.yaml pairs (pure function, no I/O).\n *\n * Returns issues for:\n * - Directories with SKILL.md but no metadata.yaml\n * - Directories with metadata.yaml but no SKILL.md\n */\nexport function validateSkillFilePairs(\n  skillMdDirs: Set<string>,\n  metadataDirs: Set<string>,\n  skillsDir: string,\n): SourceValidationIssue[] {\n  const missingMetadata = [...skillMdDirs]\n    .filter((dir) => !metadataDirs.has(dir))\n    .map((dir) => ({\n      severity: \"error\" as const,\n      file: path.join(skillsDir, dir),\n      message: `Missing ${STANDARD_FILES.METADATA_YAML} — skill directory has ${STANDARD_FILES.SKILL_MD} but no metadata`,\n    }));\n\n  const missingSkillMd = [...metadataDirs]\n    .filter((dir) => !skillMdDirs.has(dir))\n    .map((dir) => ({\n      severity: \"error\" as const,\n      file: path.join(skillsDir, dir),\n      message: `Missing ${STANDARD_FILES.SKILL_MD} — skill directory has ${STANDARD_FILES.METADATA_YAML} but no SKILL.md`,\n    }));\n\n  return [...missingMetadata, ...missingSkillMd];\n}\n\n/**\n * Validates a skills source repository for metadata correctness.\n *\n * Checks:\n * 1. Every metadata.yaml against the strict validation schema\n *    (over-length cliDescription is downgraded to a warning)\n * 2. Directory name equals the skill's machine id (SKILL.md frontmatter name)\n * 3. Cross-references resolve to existing skill IDs (via checkMatrixHealth)\n * 4. camelCase key convention (no snake_case)\n * 5. Every skill directory has both SKILL.md and metadata.yaml\n *\n * `reader` decides how loudly one of those findings is stated — see {@link MarketplaceReader}.\n * It defaults to `\"author\"`, the louder verdict: a caller that names nobody has said nothing\n * about who is reading, and under-reporting to the one person who can fix the file is the worse\n * of the two ways to be wrong.\n */\nexport async function validateSource(\n  sourcePath: string,\n  reader: MarketplaceReader = \"author\",\n): Promise<SourceValidationResult> {\n  const resolvedPath = path.isAbsolute(sourcePath) ? sourcePath : path.resolve(sourcePath);\n\n  if (!(await directoryExists(resolvedPath))) {\n    return buildResult(\n      [{ severity: \"error\", file: resolvedPath, message: \"Marketplace directory does not exist\" }],\n      0,\n    );\n  }\n\n  // ABORT on an unreadable config, caught by `validateOneSource`, which turns it into an issue\n  // against this marketplace. Defaulting past it would validate whatever sits at `src/skills/` and\n  // call a marketplace whose skills live elsewhere empty.\n  const sourceProjectConfig = await loadSourceRepoConfig(resolvedPath);\n  const skillsDirRelPath = sourceProjectConfig?.skillsDir ?? SKILLS_DIR_PATH;\n  const skillsDir = path.join(resolvedPath, skillsDirRelPath);\n\n  if (!(await directoryExists(skillsDir))) {\n    return buildResult(\n      [{ severity: \"error\", file: skillsDir, message: \"Skills directory does not exist\" }],\n      0,\n    );\n  }\n\n  // Phase 1: Check every skill directory has both SKILL.md and metadata.yaml\n  const skillMdFiles = await glob(`**/${STANDARD_FILES.SKILL_MD}`, skillsDir);\n  const metadataFiles = await glob(`**/${STANDARD_FILES.METADATA_YAML}`, skillsDir);\n\n  const skillMdDirs = new Set(skillMdFiles.map((f) => path.dirname(f)));\n  const metadataDirs = new Set(metadataFiles.map((f) => path.dirname(f)));\n\n  const pairIssues = validateSkillFilePairs(skillMdDirs, metadataDirs, skillsDir);\n\n  // Phase 2: Validate each metadata.yaml against strict schema and conventions.\n  // Pair violations were already reported by phase 1 — validate only complete pairs.\n  const validMetadataFiles = metadataFiles.filter((f) => skillMdDirs.has(path.dirname(f)));\n  const skillIssues = await validateSkillsInTurn(skillsDir, skillsDirRelPath, validMetadataFiles);\n\n  // Phase 3: Cross-reference validation via matrix health check\n  const crossReferenceIssues = await checkCrossReferences(resolvedPath, reader);\n\n  // Phases 4–6: optional source-repo targets — run in parallel\n  // Phase 4: stack skill metadata + stack configs\n  // Phase 5: agent metadata\n  // Phase 6: config/*.ts runtime exports\n  const extraIssues = await Promise.all([\n    validateStacks(resolvedPath),\n    validateAgents(resolvedPath),\n    validateConfigFiles(resolvedPath),\n  ]);\n\n  return buildResult(\n    [...pairIssues, ...skillIssues, ...crossReferenceIssues, ...extraIssues.flat()],\n    validMetadataFiles.length,\n  );\n}\n\n/** {@link validateOneSkill} over every complete pair, one skill at a time, in the order given. */\nasync function validateSkillsInTurn(\n  skillsDir: string,\n  skillsDirRelPath: string,\n  metadataFiles: string[],\n): Promise<SourceValidationIssue[]> {\n  const issues: SourceValidationIssue[] = [];\n  for (const metadataFile of metadataFiles) {\n    issues.push(...(await validateOneSkill(skillsDir, skillsDirRelPath, metadataFile)));\n  }\n  return issues;\n}\n\n/**\n * Why a YAML file could not be read, in the parser's own words. Two phases refuse the same\n * way — the skill-pair scan and the stack/agent scan — and they printed different sentences\n * for a while, one carrying the cause and one dropping it; naming the message once is what\n * stops them diverging again.\n */\nfunction yamlParseFailure(error: unknown): string {\n  return `Failed to parse YAML: ${getErrorMessage(error)}`;\n}\n\n/**\n * One complete skill pair, judged four ways: its metadata.yaml parses, its keys are camelCase,\n * it satisfies the strict published-skill schema, and its directory is named after the id its\n * SKILL.md declares. A file nothing can be parsed out of reports that and stops — every check\n * after it reads the parsed value, so each would only restate the same fault.\n */\nasync function validateOneSkill(\n  skillsDir: string,\n  skillsDirRelPath: string,\n  metadataFile: string,\n): Promise<SourceValidationIssue[]> {\n  const relPath = path.join(skillsDirRelPath, metadataFile);\n\n  let rawMetadata: unknown;\n  try {\n    rawMetadata = parseYaml(await readFile(path.join(skillsDir, metadataFile)));\n  } catch (error) {\n    return [{ severity: \"error\", file: relPath, message: yamlParseFailure(error) }];\n  }\n\n  return [\n    ...checkSnakeCaseKeys(rawMetadata, relPath),\n    ...checkMetadataSchema(rawMetadata, relPath),\n    // Independent of metadata validity — the id lives in SKILL.md frontmatter\n    ...(await checkSkillDirName(skillsDir, skillsDirRelPath, path.dirname(metadataFile))),\n  ];\n}\n\n/**\n * The strict published-skill schema's verdict, as its hard errors plus the one advisory\n * (over-length cliDescription) `splitMetadataValidationIssues` separates out.\n */\nfunction checkMetadataSchema(rawMetadata: unknown, relPath: string): SourceValidationIssue[] {\n  const result = validateSkillMetadata(rawMetadata);\n  if (result.success) return [];\n\n  const { errors, warnings } = splitMetadataValidationIssues(result.error, rawMetadata);\n  return [\n    ...errors.map((message) => ({ severity: \"error\" as const, file: relPath, message })),\n    ...warnings.map((message) => ({ severity: \"warning\" as const, file: relPath, message })),\n  ];\n}\n\n/**\n * The manifest as a reader of the report has to type it — the location half of the row\n * `doctor` prints, and therefore the file they open.\n */\nconst MARKETPLACE_MANIFEST_PATH = path.join(PLUGIN_MANIFEST_DIR, MARKETPLACE_JSON);\n\n/**\n * How loud a missing or unreadable manifest is, by who is reading: its author is one build from\n * the fix, and a consumer has nothing to load. Keyed on the whole union, so a new kind of reader\n * does not compile until someone decides this.\n */\nconst MANIFEST_REQUIRED_SEVERITY = {\n  author: \"warning\",\n  consumer: \"error\",\n} as const satisfies Record<MarketplaceReader, SourceValidationIssue[\"severity\"]>;\n\n/**\n * Whether every relationship the source declares resolves to a skill it actually holds.\n * A load that did not complete is reported by {@link matrixLoadFailure}, which decides\n * whether the failure is this marketplace's fault or merely this pass's.\n */\nasync function checkCrossReferences(\n  resolvedPath: string,\n  reader: MarketplaceReader,\n): Promise<SourceValidationIssue[]> {\n  try {\n    await loadSkillsMatrixFromSource({ sourceFlag: resolvedPath, skipExtraSources: true });\n    return checkMatrixHealth(matrix).map((healthIssue) =>\n      toSourceIssue(healthIssue, resolvedPath, reader),\n    );\n  } catch (error) {\n    return [matrixLoadFailure(error, reader)];\n  }\n}\n\n/**\n * A load this pass could not complete, as the finding a reader can act on.\n *\n * Three answers, because the failures are not one event. A marketplace with no valid\n * manifest cannot be loaded at all, so the finding is the manifest's, filed against the file\n * a reader opens rather than the categories file this pass happened to be reading, at the\n * severity {@link MANIFEST_REQUIRED_SEVERITY} gives its reader. A manifest naming the marketplace\n * something Claude Code registers no plugin under leaves nothing here installable, so it is\n * this marketplace's own ERROR, against the file that holds the name — without it the\n * Marketplaces row counted such a marketplace as validated and printed a tick beneath\n * `doctor`'s own warning about that same file, and a warning above a tick is what a reader\n * stops believing. Everything else only leaves this pass unable to run, so it stays a warning\n * against the file it was reading. Read off the throw's TYPE, so nothing here matches on a\n * sentence.\n */\nfunction matrixLoadFailure(error: unknown, reader: MarketplaceReader): SourceValidationIssue {\n  if (error instanceof MarketplaceManifestRequiredError) {\n    return {\n      severity: MANIFEST_REQUIRED_SEVERITY[reader],\n      file: MARKETPLACE_MANIFEST_PATH,\n      message: getErrorMessage(error),\n    };\n  }\n\n  if (error instanceof MarketplaceNameRefusedError) {\n    return {\n      severity: \"error\",\n      file: MARKETPLACE_MANIFEST_PATH,\n      message: getErrorMessage(error),\n    };\n  }\n\n  return {\n    severity: \"warning\",\n    file: SKILL_CATEGORIES_PATH,\n    message: `Cross-reference validation skipped: failed to load categories/rules: ${getErrorMessage(error)}`,\n  };\n}\n\n/**\n * The audit manifest, as a path a reader can open. It is this CLI's own file rather than anything\n * in the marketplace being validated, and it has to be: the verdict a matrix contradicts is\n * recorded there and the marketplace holds no copy of it.\n */\nconst SKILL_AUDIT_PATH = \"src/cli/lib/configuration/skill-audit.ts\";\n\n/**\n * The file a finding's defect is written in — the one `doctor` renders as the location half of the\n * line, and therefore the one the reader opens.\n *\n * Each answer is the file the check actually reads, which is not always the file its name suggests:\n *\n * - a category and the `domain` it omits are both declared in the categories file, and a skill\n *   naming a category nothing defines is the same file short an entry (its own metadata.yaml is\n *   the other half of that fix, and the message already names the skill);\n * - every relation a resolved skill carries comes from the rules file — no metadata.yaml declares\n *   one — so an unresolved reference and the dangling slug behind it are both written there;\n * - a verdict, recorded or missing, is the audit manifest's.\n *\n * Exhaustive on purpose: a seventh finding kind will not compile until someone decides where its\n * defect lives, which is the property one path shared by all six had already lost.\n */\nfunction fileHoldingDefect(finding: MatrixHealthIssue[\"finding\"]): string {\n  switch (finding) {\n    case \"category-missing-domain\":\n    case \"skill-unknown-category\":\n      return SKILL_CATEGORIES_PATH;\n    case \"skill-unresolved-relation-ref\":\n    case \"rule-unresolved-slug\":\n      return SKILL_RULES_PATH;\n    case \"audit-verdict-contradiction\":\n    case \"skill-unaudited\":\n      return SKILL_AUDIT_PATH;\n    default: {\n      const exhaustive: never = finding;\n      return exhaustive;\n    }\n  }\n}\n\n/**\n * One health finding as this reader should hear it. Every kind but one is reported at the\n * severity the health check gave it — that severity is a property of the defect. The exception\n * is the slug a marketplace's own rules dangle, which is a property of the defect AND of who is\n * looking: a typo the author can fix, and a file the consumer cannot open.\n *\n * The reader moves the severity and the wording; it never moves the file, because which file holds\n * the defect is not a fact about who is reading.\n */\nfunction toSourceIssue(\n  healthIssue: MatrixHealthIssue,\n  marketplacePath: string,\n  reader: MarketplaceReader,\n): SourceValidationIssue {\n  const file = fileHoldingDefect(healthIssue.finding);\n\n  if (reader === \"consumer\" && healthIssue.finding === \"rule-unresolved-slug\") {\n    return {\n      severity: \"warning\",\n      file,\n      message: consumedMarketplaceMessage(marketplacePath, healthIssue.details),\n    };\n  }\n\n  return {\n    severity: healthIssue.severity,\n    file,\n    message: healthIssue.details,\n  };\n}\n\n/**\n * The same finding, addressed to someone who did not write the rule. It leads with the\n * marketplace because that is the part the slug alone does not tell them, and it says outright\n * that there is nothing here to fix — a warning that sends a reader hunting through their own\n * project for a typo in a file they do not own is worse than no warning at all.\n */\nfunction consumedMarketplaceMessage(marketplacePath: string, details: string): string {\n  return `Marketplace '${marketplacePath}': ${details}. Nothing to fix here — the rule is that marketplace's, not this project's`;\n}\n\n/**\n * Validates stack-embedded skill metadata.yaml files and stack config.yaml files.\n * Skips silently when src/stacks/ does not exist.\n */\nasync function validateStacks(resolvedPath: string): Promise<SourceValidationIssue[]> {\n  const stacksDir = path.join(resolvedPath, DIRS.stacks);\n  if (!(await directoryExists(stacksDir))) return [];\n\n  const [skillMetaIssues, configIssues] = await Promise.all([\n    validateYamlFiles({\n      baseDir: stacksDir,\n      relBaseDir: DIRS.stacks,\n      pattern: `**/skills/**/${STANDARD_FILES.METADATA_YAML}`,\n      schema: metadataValidationSchema,\n    }),\n    validateYamlFiles({\n      baseDir: stacksDir,\n      relBaseDir: DIRS.stacks,\n      pattern: `*/${STANDARD_FILES.CONFIG_YAML}`,\n      schema: stackConfigValidationSchema,\n    }),\n  ]);\n  return [...skillMetaIssues, ...configIssues];\n}\n\n/**\n * Validates each hand-authored agent `metadata.yaml` under `DIRS.agents` against\n * `agentYamlGenerationSchema` — compilation's INPUT schema rather than an output one, since\n * compiling an agent writes one `.md` file and no YAML at all. Skips silently when src/agents/\n * does not exist.\n */\nasync function validateAgents(resolvedPath: string): Promise<SourceValidationIssue[]> {\n  const agentsDir = path.join(resolvedPath, DIRS.agents);\n  if (!(await directoryExists(agentsDir))) return [];\n\n  return validateYamlFiles({\n    baseDir: agentsDir,\n    relBaseDir: DIRS.agents,\n    pattern: `**/${STANDARD_FILES.AGENT_METADATA_YAML}`,\n    schema: agentYamlGenerationSchema,\n  });\n}\n\n/**\n * Validates TypeScript config files (skill-categories.ts, skill-rules.ts, stacks.ts)\n * by runtime-loading them via loadConfig and validating the default export.\n * Skips silently when a file does not exist.\n */\nasync function validateConfigFiles(resolvedPath: string): Promise<SourceValidationIssue[]> {\n  const results = await Promise.all([\n    validateTsConfig(resolvedPath, SKILL_CATEGORIES_PATH, skillCategoriesFileSchema),\n    validateTsConfig(resolvedPath, SKILL_RULES_PATH, skillRulesFileSchema),\n    validateTsConfig(resolvedPath, STACKS_FILE_PATH, stacksConfigSchema),\n  ]);\n  return results.flat();\n}\n\n/** One kind of YAML file a source may carry: where it lives, and the schema each must satisfy. */\ntype YamlFileScan = {\n  baseDir: string;\n  /**\n   * `baseDir` as issues report it, so their locations match the project-relative form used\n   * elsewhere.\n   */\n  relBaseDir: string;\n  pattern: string;\n  schema: z.ZodType<unknown>;\n};\n\n/**\n * {@link validateYamlFile} over every file the scan's pattern matches, one file at a time, in\n * glob order.\n */\nasync function validateYamlFiles(scan: YamlFileScan): Promise<SourceValidationIssue[]> {\n  const issues: SourceValidationIssue[] = [];\n  const files = await glob(scan.pattern, scan.baseDir);\n\n  for (const relFile of files) {\n    issues.push(...(await validateYamlFile(scan, relFile)));\n  }\n  return issues;\n}\n\n/**\n * One YAML file judged against the scan's schema: its parse error if it cannot be read, otherwise\n * the schema's errors as field-path messages — none when it passes.\n */\nasync function validateYamlFile(\n  scan: YamlFileScan,\n  relFile: string,\n): Promise<SourceValidationIssue[]> {\n  const displayPath = path.join(scan.relBaseDir, relFile);\n\n  let parsed: unknown;\n  try {\n    parsed = parseYaml(await readFile(path.join(scan.baseDir, relFile)));\n  } catch (error) {\n    return [{ severity: \"error\", file: displayPath, message: yamlParseFailure(error) }];\n  }\n\n  const result = scan.schema.safeParse(parsed);\n  if (result.success) return [];\n\n  return formatZodErrors(result.error).map((message) => ({\n    severity: \"error\" as const,\n    file: displayPath,\n    message,\n  }));\n}\n\n/**\n * Runtime-loads a TypeScript config file via loadConfig and reports validation failures.\n * Absent files are not errors — only report when the file exists but fails to load or validate.\n *\n * The two ways a file can say nothing are reported apart, because the author's next move differs\n * and they used to arrive wearing each other's words. A `null` is a file that exported nothing at\n * all; a module that exported only named bindings raises {@link ConfigDefaultExportError}, which\n * is the one this file's own config files get wrong — `export const skillRules = {...}` reads to\n * `loadConfig` as a namespace, and validating THAT against the schema reports whichever field the\n * schema names first as missing from a file the author can see it in.\n */\nasync function validateTsConfig(\n  resolvedPath: string,\n  relConfigPath: string,\n  schema: z.ZodType<unknown>,\n): Promise<SourceValidationIssue[]> {\n  const absPath = path.join(resolvedPath, relConfigPath);\n  if (!(await fileExists(absPath))) return [];\n\n  try {\n    const loaded = await loadConfig(absPath, schema);\n    if (loaded === null) {\n      return [{ severity: \"error\", file: relConfigPath, message: \"Config is empty\" }];\n    }\n    return [];\n  } catch (error) {\n    if (error instanceof ConfigDefaultExportError) {\n      return [{ severity: \"error\", file: relConfigPath, message: \"Config has no default export\" }];\n    }\n    return [\n      { severity: \"error\", file: relConfigPath, message: formatLoadError(relConfigPath, error) },\n    ];\n  }\n}\n\n/**\n * Normalizes a loadConfig error so the message references the relative config path,\n * not the absolute path embedded by loadConfig's own template string.\n */\nfunction formatLoadError(relConfigPath: string, error: unknown): string {\n  const raw = getErrorMessage(error);\n  const stripped = raw.replace(/Failed to load config from '[^']+':\\s*/, \"\");\n  return `Failed to load ${relConfigPath}: ${stripped}`;\n}\n\nfunction buildResult(issues: SourceValidationIssue[], skillCount: number): SourceValidationResult {\n  const errorCount = issues.filter((i) => i.severity === \"error\").length;\n  const warningCount = issues.filter((i) => i.severity === \"warning\").length;\n  return { issues, skillCount, errorCount, warningCount };\n}\n","import os from \"os\";\nimport path from \"path\";\nimport { partition } from \"remeda\";\nimport { getErrorMessage } from \"../utils/errors.js\";\nimport { PLUGIN_MANIFEST_DIR, STANDARD_FILES } from \"../consts.js\";\nimport { directoryExists, fileExists, listDirectories } from \"../utils/fs.js\";\nimport { listAgentMdFiles, splitAgentsByProvenance } from \"./agents/index.js\";\nimport { readSkillMetadata } from \"./loading/index.js\";\nimport {\n  configDirsInPlay,\n  findConfigLoadFailures,\n  isLocalSource,\n  loadInstalledConfig,\n  resolvePrimarySourceEntry,\n  type ConfigLoadError,\n  type LoadedProjectConfig,\n  type SourceEntry,\n} from \"./configuration/index.js\";\nimport { isHomeDirectory, resolveInstallPaths } from \"./installation/index.js\";\nimport { getInstalledConfigPath } from \"./installation/install-base-dir.js\";\nimport {\n  getInstalledPluginsRegistryPath,\n  getProjectPluginsDir,\n  getUserPluginsDir,\n  listRegisteredPluginInstalls,\n  validateAgentFrontmatter,\n  validateAllPlugins,\n  validatePlugin,\n  validateSkillFrontmatter,\n  type ResolvedPlugin,\n} from \"./plugins/index.js\";\nimport { splitMetadataValidationIssues, validateSkillMetadata } from \"./schemas.js\";\nimport { readForkedFromMetadata } from \"./skills/index.js\";\nimport { isSourceRepo, validateSource, type MarketplaceReader } from \"./source-validator.js\";\nimport { invalidResult, mergeValidationResults, validResult } from \"./validation-result.js\";\nimport { scopeLabel } from \"../utils/messages.js\";\nimport { plural } from \"../utils/string.js\";\nimport type { ValidationResult } from \"../types/index.js\";\n\n/** How a source repository under the cwd is labelled when it is not a registered source. */\nconst CWD_SOURCE_NAME = \"current directory\";\n\n/** What a compiled agent is called on disk; `splitAgentsByProvenance` answers in bare names. */\nconst AGENT_FILE_EXTENSION = \".md\";\n\nexport type ContentIssue = {\n  severity: \"error\" | \"warning\";\n  /** The file or directory a reader has to open to fix the issue. */\n  file: string;\n  message: string;\n};\n\n/**\n * One content pass: what it walked, what it found, and what it deliberately did\n * not check. `notes` carries neither errors nor warnings — it is the record of\n * which sources were reached and which were skipped.\n */\nexport type ContentValidation = {\n  count: number;\n  issues: ContentIssue[];\n  notes: string[];\n};\n\nconst NOTHING_VALIDATED: ContentValidation = { count: 0, issues: [], notes: [] };\n\nfunction mergeValidations(parts: ContentValidation[]): ContentValidation {\n  return parts.reduce(\n    (acc, part) => ({\n      count: acc.count + part.count,\n      issues: [...acc.issues, ...part.issues],\n      notes: [...acc.notes, ...part.notes],\n    }),\n    NOTHING_VALIDATED,\n  );\n}\n\n/** Render an absolute path with a `~/` prefix when it's under the user's home directory. */\nfunction displayDir(absolutePath: string): string {\n  const home = os.homedir();\n  if (absolutePath === home) return \"~\";\n  if (absolutePath.startsWith(home + path.sep)) {\n    return `~${path.sep}${path.relative(home, absolutePath)}`;\n  }\n  return absolutePath;\n}\n\nfunction toIssues(file: string, result: ValidationResult): ContentIssue[] {\n  return [\n    ...result.errors.map((message) => ({ severity: \"error\" as const, file, message })),\n    ...result.warnings.map((message) => ({ severity: \"warning\" as const, file, message })),\n  ];\n}\n\n/** Says which of the three load outcomes a config file is in, without restating the loader. */\nconst CONFIG_UNREADABLE = \"exists but could not be loaded\";\n\n/**\n * Validates the config files this run reads: the project's own and the global one it inlines.\n *\n * A config that exists and cannot be parsed is reported here rather than left to the operational\n * layer, for the reason that layer exists to be gated on — every operational row is read OUT of\n * this file, so each would be a cascade of the same fault. It is also the only report that can\n * carry the loader's reason: the layers below re-read the file per check, and their own\n * diagnostics for it are what used to arrive spliced between the rows.\n *\n * An ABSENT config is not a finding here. It is the legitimate state `init` exists for, and the\n * operational layer already names it and offers the remedy that fits it.\n */\nexport async function validateProjectConfigFile(projectDir: string): Promise<ContentValidation> {\n  const [present, failures] = await Promise.all([\n    countExistingConfigs(projectDir),\n    findConfigLoadFailures(projectDir),\n  ]);\n\n  return { count: present, issues: failures.map(toUnreadableConfigIssue), notes: [] };\n}\n\n/**\n * Led by whose config it is, as every config row `doctor` prints is: from a project, the file can\n * be its own or the global one it inherits.\n */\nfunction toUnreadableConfigIssue(failure: ConfigLoadError): ContentIssue {\n  return {\n    severity: \"error\",\n    file: `${scopeLabel(failure.scope)}'s ${displayDir(failure.configPath)}`,\n    message: `${CONFIG_UNREADABLE}: ${failure.reason}`,\n  };\n}\n\nasync function countExistingConfigs(projectDir: string): Promise<number> {\n  const present = await Promise.all(\n    configDirsInPlay(projectDir).map((dir) => fileExists(getInstalledConfigPath(dir))),\n  );\n  return present.filter(Boolean).length;\n}\n\n/**\n * Validates the marketplace this installation reads from when it is local, plus the current\n * directory when that is itself a skills source repository — that repository is the content a\n * marketplace author runs this against, and it is not the source they read skills from.\n * A remote marketplace is recorded as skipped rather than fetched.\n *\n * Each one is validated as the reader's own or as someone else's — see {@link readerFor}.\n */\nexport async function validateRegisteredSources(projectDir: string): Promise<ContentValidation> {\n  // DEGRADE on an unreadable config. This pass declares `readsConfig: true`, so `doctor` stands it\n  // down before it runs whenever the config check has already reported the file — and if it is\n  // reached anyway, `safeCheck` turns the throw into a failed row rather than an aborted run. A\n  // command whose job is naming what is wrong here must survive the thing it is naming.\n  const primary = await resolvePrimarySourceEntry(projectDir);\n  const registered = [primary];\n  const remote = registered.filter((source) => !isLocalSource(source.url));\n  const local = await localSourcesToValidate(projectDir, registered);\n\n  const outcomes = await Promise.all(\n    local.map((source) => validateOneSource(source, readerFor(projectDir, source))),\n  );\n\n  return {\n    count: local.length,\n    issues: outcomes.flatMap((outcome) => outcome.issues),\n    notes: [\n      ...outcomes.map((outcome) => outcome.note),\n      ...remote.map((source) => `${source.name} (${source.url}) — skipped (remote)`),\n    ],\n  };\n}\n\nasync function localSourcesToValidate(\n  projectDir: string,\n  registered: SourceEntry[],\n): Promise<SourceEntry[]> {\n  const local = registered.filter((source) => isLocalSource(source.url));\n  const alreadyCovered = local.some((source) => isCwdMarketplace(projectDir, source));\n\n  if (alreadyCovered || !(await isSourceRepo(projectDir))) return local;\n\n  return [...local, { name: CWD_SOURCE_NAME, url: projectDir }];\n}\n\n/** Whether this marketplace IS the directory the command ran in, however the config spells it. */\nfunction isCwdMarketplace(projectDir: string, source: SourceEntry): boolean {\n  return path.resolve(projectDir, source.url) === projectDir;\n}\n\n/**\n * Where this layer decides what the reader's relationship to a marketplace is — the one place\n * that holds both the directory the command ran in and the path of each marketplace it validates.\n * The appended `CWD_SOURCE_NAME` entry answers `\"author\"` by construction, which is the whole of\n * why a marketplace author's own repository is judged the way they need it to be.\n */\nfunction readerFor(projectDir: string, source: SourceEntry): MarketplaceReader {\n  return isCwdMarketplace(projectDir, source) ? \"author\" : \"consumer\";\n}\n\ntype SourceOutcome = { note: string; issues: ContentIssue[] };\n\nasync function validateOneSource(\n  source: SourceEntry,\n  reader: MarketplaceReader,\n): Promise<SourceOutcome> {\n  const label = `${source.name} (${source.url})`;\n  try {\n    const result = await validateSource(source.url, reader);\n    return { note: `${label} — ${plural(result.skillCount, \"skill\")}`, issues: result.issues };\n  } catch (error) {\n    return {\n      note: `${label} — failed`,\n      issues: [{ severity: \"error\", file: source.url, message: getErrorMessage(error) }],\n    };\n  }\n}\n\n/** Validates every installed plugin bundle in the global and project plugin directories. */\nexport async function validateInstalledPlugins(projectDir: string): Promise<ContentValidation> {\n  const dirs = [\n    getUserPluginsDir(),\n    ...(isHomeDirectory(projectDir) ? [] : [getProjectPluginsDir(projectDir)]),\n  ];\n  return mergeValidations(await Promise.all(dirs.map(validatePluginsDirectory)));\n}\n\nasync function validatePluginsDirectory(pluginsDir: string): Promise<ContentValidation> {\n  if (!(await directoryExists(pluginsDir))) return NOTHING_VALIDATED;\n\n  if (await fileExists(getInstalledPluginsRegistryPath(pluginsDir))) {\n    const registryValidation = await validateRegistryPlugins(pluginsDir);\n    if (registryValidation !== undefined) return registryValidation;\n  }\n\n  const pluginDirs = await findPluginDirectories(pluginsDir);\n  if (pluginDirs.length === 0) return NOTHING_VALIDATED;\n\n  const { results } = await validateAllPlugins(pluginsDir);\n\n  return {\n    count: results.length,\n    issues: results.flatMap(({ name, result }) => toIssues(name, result)),\n    notes: [],\n  };\n}\n\n/**\n * Validates the installs recorded in the plugins directory's `installed_plugins.json`\n * (claude CLI >=2.1.220 cache layout). Returns undefined when the registry records no\n * installs so the caller can fall back to the direct-children scan (older/manual layouts).\n */\nasync function validateRegistryPlugins(pluginsDir: string): Promise<ContentValidation | undefined> {\n  let installs: ResolvedPlugin[];\n  try {\n    installs = await listRegisteredPluginInstalls(pluginsDir);\n  } catch (error) {\n    return {\n      count: 0,\n      issues: [\n        {\n          severity: \"error\",\n          file: displayDir(getInstalledPluginsRegistryPath(pluginsDir)),\n          message: getErrorMessage(error),\n        },\n      ],\n      notes: [],\n    };\n  }\n\n  if (installs.length === 0) return undefined;\n\n  // A recorded installPath that no longer exists surfaces as an invalid plugin\n  // via validatePlugin's structure check, not a crash.\n  const results = await Promise.all(\n    installs.map(async ({ pluginKey, installPath }) =>\n      toIssues(pluginKey, await validatePlugin(installPath)),\n    ),\n  );\n\n  return { count: installs.length, issues: results.flat(), notes: [] };\n}\n\nasync function findPluginDirectories(pluginsDir: string): Promise<string[]> {\n  const entries = await listDirectories(pluginsDir);\n  const checks = await Promise.all(\n    entries.map(async (name) => ({\n      name,\n      isPlugin: await directoryExists(path.join(pluginsDir, name, PLUGIN_MANIFEST_DIR)),\n    })),\n  );\n  return checks.filter((check) => check.isPlugin).map((check) => check.name);\n}\n\n/**\n * Validates the SKILL.md and metadata.yaml of every installed skill this installation owns, both\n * scopes.\n *\n * Ownership has to be asked because `~/.claude/skills/` is CLAUDE CODE's directory, shared with\n * everything else that installs a skill there — not this CLI's private space. Judging every\n * directory in it against this CLI's schema reported a skill some other tool put there as a fault\n * in the user's install, in a file they never wrote and cannot fix from here.\n *\n * Two claims make a directory this installation's, and either is enough:\n *\n * - **The configuration in play names its id.** Both configs a run reads, because both scopes are\n *   walked. This is the claim that keeps `doctor` loud where it matters most: the provenance\n *   marker lives INSIDE metadata.yaml, so a skill whose metadata is missing or unparseable — the\n *   plainest breakage there is — can carry no marker to be recognised by.\n * - **The directory carries `forkedFrom`.** The marker this CLI stamps into every skill directory\n *   it writes, and the same question `uninstall` asks before removing anything. It answers for the\n *   skills a configuration has stopped naming, or never got the chance to.\n *\n * A directory neither claim reaches is not judged and not counted. It IS named — see\n * {@link foreignSkillNote}: a check that quietly walks past a directory is indistinguishable from\n * one that missed it.\n */\nexport async function validateInstalledSkills(projectDir: string): Promise<ContentValidation> {\n  const configuredIds = await configuredSkillIds(projectDir);\n  return mergeValidations(\n    await Promise.all(\n      installedDirs(projectDir, \"skillsDir\").map((dir) =>\n        validateSkillsDirectory(dir, configuredIds),\n      ),\n    ),\n  );\n}\n\n/** Every skill id the configs this run reads name, across both scopes and both install modes. */\nasync function configuredSkillIds(projectDir: string): Promise<ReadonlySet<string>> {\n  const loaded = await Promise.all(\n    configDirsInPlay(projectDir).map((dir) => loadInstalledConfig(dir)),\n  );\n  return new Set(loaded.flatMap(configuredIdsOf));\n}\n\nfunction configuredIdsOf(loaded: LoadedProjectConfig | null): string[] {\n  if (!loaded) return [];\n  return loaded.config.skills.map((skill) => skill.id);\n}\n\n/** Validates the frontmatter of every compiled agent file, both scopes. */\nexport async function validateInstalledAgents(projectDir: string): Promise<ContentValidation> {\n  return mergeValidations(\n    await Promise.all(installedDirs(projectDir, \"agentsDir\").map(validateAgentsDirectory)),\n  );\n}\n\n/**\n * The directories to walk for an installed-content pass. At the home directory both\n * scopes resolve to the same place, so it is walked once instead of twice.\n */\nfunction installedDirs(projectDir: string, key: \"skillsDir\" | \"agentsDir\"): string[] {\n  const global = resolveInstallPaths(projectDir, \"global\")[key];\n  if (isHomeDirectory(projectDir)) return [global];\n  return [global, resolveInstallPaths(projectDir, \"project\")[key]];\n}\n\n/** What an installed-content pass walked, named rather than validated. */\nexport type InstalledArtifacts = {\n  /** Every skill directory this CLI can prove it wrote, both scopes, as display paths. */\n  skills: string[];\n  /** Every compiled agent file this CLI can prove it wrote, both scopes, as display paths. */\n  agents: string[];\n};\n\n/**\n * The same two walks {@link validateInstalledSkills} and {@link validateInstalledAgents} count,\n * naming what belongs to this installation instead of judging it. `doctor` reports this when no\n * configuration exists to compare the installation against: there is nothing to validate the\n * files AGAINST, and naming them is the whole finding.\n *\n * Each walk applies the same ownership question its own pass asks, minus the half that needs a\n * config to answer — see {@link listSkillDirsWithOurProvenance} and\n * {@link listAgentFilesWithOurProvenance}. Both are the question the command this row sends the\n * reader to asks before it removes anything, so what is named here is what `uninstall` takes.\n */\nexport async function listInstalledArtifacts(projectDir: string): Promise<InstalledArtifacts> {\n  const [skills, agents] = await Promise.all([\n    listAcrossScopes(installedDirs(projectDir, \"skillsDir\"), listSkillDirsWithOurProvenance),\n    listAcrossScopes(installedDirs(projectDir, \"agentsDir\"), listAgentFilesWithOurProvenance),\n  ]);\n  return { skills, agents };\n}\n\n/**\n * The compiled agent files in one tree that this CLI can prove it wrote.\n *\n * The agent axis's counterpart to {@link listSkillDirsWithOurProvenance}, and deliberately\n * `splitAgentsByProvenance` rather than a second reading of the same marker: `uninstall` decides\n * what to remove with no configuration by asking that function, so a listing built any other way\n * could offer a file it then refused. It did — every `*.md` in the directory was named here while\n * the remover took only the marked ones, so a hand-authored agent was offered by one screen and\n * declined by the next.\n *\n * A file that cannot be read carries no marker and is not listed, which is that function's own\n * rule: \"cannot prove it is ours\" and \"is not ours\" call for the same answer. Nothing goes\n * unmentioned either way — {@link validateInstalledAgents} walks every agent file whatever state\n * the config is in.\n */\nasync function listAgentFilesWithOurProvenance(agentsDir: string): Promise<string[]> {\n  const { marked } = await splitAgentsByProvenance(agentsDir);\n  return marked.map((name) => `${name}${AGENT_FILE_EXTENSION}`);\n}\n\n/**\n * The skill directories in one tree that this CLI can prove it wrote.\n *\n * With no configuration left to name an id, the provenance marker is the only claim a directory\n * can carry — and it is the claim `uninstall` reads before removing anything, so every directory\n * listed here is one that command would actually remove. Listing a directory it would refuse is\n * the CLI recommending what it then declines to do.\n *\n * The marker lives INSIDE `metadata.yaml`, so a directory whose metadata is missing or unreadable\n * can carry no marker and is not listed. That is deliberate rather than a gap: \"cannot prove it is\n * ours\" and \"is not ours\" call for the same answer — leave it alone — which is the rule\n * `splitAgentsByProvenance` already applies to compiled agents. Nothing goes unmentioned either\n * way: {@link validateInstalledSkills} runs whatever state the config is in, and names every\n * directory it stepped over.\n */\nasync function listSkillDirsWithOurProvenance(skillsDir: string): Promise<string[]> {\n  const names = await listDirectories(skillsDir);\n  const judged = await Promise.all(\n    names.map(async (name) => ({ name, ours: await carriesOurProvenance(skillsDir, name) })),\n  );\n  return judged.filter((entry) => entry.ours).map((entry) => entry.name);\n}\n\nasync function listAcrossScopes(\n  dirs: string[],\n  listEntries: (dir: string) => Promise<string[]>,\n): Promise<string[]> {\n  const perDir = await Promise.all(dirs.map((dir) => listDisplayPaths(dir, listEntries)));\n  return perDir.flat();\n}\n\n/** One directory's entries as display paths, or nothing when the directory is absent. */\nasync function listDisplayPaths(\n  dir: string,\n  listEntries: (dir: string) => Promise<string[]>,\n): Promise<string[]> {\n  if (!(await directoryExists(dir))) return [];\n  const entries = await listEntries(dir);\n  return entries.map((entry) => displayDir(path.join(dir, entry)));\n}\n\nasync function validateSkillsDirectory(\n  skillsDir: string,\n  configuredIds: ReadonlySet<string>,\n): Promise<ContentValidation> {\n  if (!(await directoryExists(skillsDir))) return NOTHING_VALIDATED;\n\n  const skillDirs = await listDirectories(skillsDir);\n  if (skillDirs.length === 0) return NOTHING_VALIDATED;\n\n  const judged = await Promise.all(\n    skillDirs.map(async (name) => ({\n      name,\n      ours: await isOurSkillDirectory(skillsDir, name, configuredIds),\n    })),\n  );\n  const [ours, foreign] = partition(judged, (entry) => entry.ours);\n\n  const results = await Promise.all(\n    ours.map(async ({ name }) => {\n      const skillDir = path.join(skillsDir, name);\n      return toIssues(displayDir(skillDir), await validateInstalledSkill(skillDir));\n    }),\n  );\n\n  return {\n    count: ours.length,\n    issues: results.flat(),\n    notes: foreign.map(({ name }) => foreignSkillNote(skillsDir, name)),\n  };\n}\n\n/** Either claim this installation has on a skill directory — see {@link validateInstalledSkills}. */\nasync function isOurSkillDirectory(\n  skillsDir: string,\n  name: string,\n  configuredIds: ReadonlySet<string>,\n): Promise<boolean> {\n  if (configuredIds.has(name)) return true;\n  return carriesOurProvenance(skillsDir, name);\n}\n\n/**\n * The claim a skill directory carries on its own, independent of any configuration: the\n * `forkedFrom` block the copier stamps into every directory this CLI writes. One definition,\n * because the union above and the no-config listing are the same judgement with and without its\n * other half — and `uninstall` decides what to remove by asking exactly this.\n */\nasync function carriesOurProvenance(skillsDir: string, name: string): Promise<boolean> {\n  return (await readForkedFromMetadata(path.join(skillsDir, name))) !== null;\n}\n\n/**\n * A directory this pass declined to judge, named so the count and the directory listing do not\n * silently disagree. Not a warning: nothing here is wrong, and a reader sent to fix a skill they\n * did not install is worse off than one told plainly that it is not this CLI's to police.\n */\nfunction foreignSkillNote(skillsDir: string, name: string): string {\n  return `${displayDir(path.join(skillsDir, name))} — not installed by this CLI and named by no configuration here: not validated`;\n}\n\nasync function validateAgentsDirectory(agentsDir: string): Promise<ContentValidation> {\n  if (!(await directoryExists(agentsDir))) return NOTHING_VALIDATED;\n\n  const agentFiles = await listAgentMdFiles(agentsDir);\n  if (agentFiles.length === 0) return NOTHING_VALIDATED;\n\n  const results = await Promise.all(\n    agentFiles.map(async (fileName) => {\n      const agentPath = path.join(agentsDir, fileName);\n      return toIssues(displayDir(agentPath), await validateAgentFrontmatter(agentPath));\n    }),\n  );\n\n  return { count: agentFiles.length, issues: results.flat(), notes: [] };\n}\n\nasync function validateInstalledSkill(skillDir: string): Promise<ValidationResult> {\n  const skillMd = await validateSkillFile(\n    skillDir,\n    STANDARD_FILES.SKILL_MD,\n    validateSkillFrontmatter,\n  );\n  const metadata = await validateSkillFile(\n    skillDir,\n    STANDARD_FILES.METADATA_YAML,\n    validateInstalledSkillMetadata,\n  );\n\n  return mergeValidationResults([skillMd, metadata]);\n}\n\n/** One of an installed skill's files judged by `validate`, or the error of its absence. */\nasync function validateSkillFile(\n  skillDir: string,\n  fileName: string,\n  validate: (filePath: string) => Promise<ValidationResult>,\n): Promise<ValidationResult> {\n  const filePath = path.join(skillDir, fileName);\n  if (!(await fileExists(filePath))) return invalidResult(`Missing ${fileName}`);\n  return validate(filePath);\n}\n\nasync function validateInstalledSkillMetadata(metadataPath: string): Promise<ValidationResult> {\n  // Same judgment `compile` refuses on and local-skill discovery skips on: a file\n  // that describes no skill is reported here as the error it is. The strict\n  // published-skill checks below are layered on top of that verdict, never against\n  // it — doctor reports what the other two passes refuse, and then some.\n  const read = await readSkillMetadata(metadataPath);\n  if (!read.usable) {\n    return invalidResult(`${STANDARD_FILES.METADATA_YAML}: ${read.reason}`);\n  }\n\n  const metadata = read.metadata;\n  const result = validateSkillMetadata(metadata);\n  if (result.success) {\n    return validResult();\n  }\n\n  // Over-length cliDescription is advisory — only hard schema violations invalidate the skill\n  const { errors, warnings } = splitMetadataValidationIssues(result.error, metadata);\n  return {\n    valid: errors.length === 0,\n    errors: errors.map((e) => `${STANDARD_FILES.METADATA_YAML}: ${e}`),\n    warnings: warnings.map((w) => `${STANDARD_FILES.METADATA_YAML}: ${w}`),\n  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