[codex] Add skills CLI and catalog management (#6782)

## Thinking Path

> - Paperclip orchestrates AI agents for zero-human companies through
company-scoped control-plane workflows.
> - Agents need reusable, inspectable skills that can be installed,
reset, audited, exported, and assigned without bespoke local setup.
> - The existing skill truth model needed cleanup so bundled skills,
optional catalog skills, runtime skills, and adapter-provided skills
have clear provenance.
> - Operators also need a practical CLI and board UI for discovering and
managing company skills.
> - This pull request adds the skills CLI, packaged skills catalog,
company skills APIs, and catalog-aware board UI.
> - The benefit is a more reusable Paperclip company setup where skills
are portable, auditable, and easier for operators and agents to manage.

## What Changed

- Added `paperclipai skills` CLI commands and coverage for catalog
listing, installing, resetting, and inspecting company skills.
- Added a packaged `@paperclipai/skills-catalog` workspace with bundled
and optional skill content plus validation/build tests.
- Added shared company-skill types and validators used across CLI,
server, and UI contracts.
- Added server catalog APIs/services for company skill catalog
operations, reset semantics, audit behavior, and portability provenance.
- Updated adapter skill handling so runtime/catalog provenance remains
explicit across local adapters.
- Added board UI support for browsing and managing catalog-backed
company skills.
- Updated docs for the skills CLI/catalog flow and the company skills
Paperclip skill reference.
- Rebased the branch onto current `paperclipai/paperclip:master`; no
`pnpm-lock.yaml`, `.github/workflows`, or migration files are included
in the final PR diff.

## Verification

- Passed: `pnpm run preflight:workspace-links && pnpm exec vitest run
cli/src/__tests__/skills.test.ts
packages/skills-catalog/src/catalog-builder.test.ts
packages/skills-catalog/src/shipped-catalog.test.ts
packages/shared/src/validators/company-skill.test.ts
packages/adapter-utils/src/server-utils.test.ts
packages/plugins/create-paperclip-plugin/src/entrypoints.test.ts
server/src/__tests__/company-skills-catalog-service.test.ts
server/src/__tests__/company-skills-routes.test.ts
server/src/__tests__/company-portability.test.ts`.
- Passed: `pnpm exec vitest run
server/src/__tests__/workspace-runtime.test.ts -t "default
branch|origin/master|symbolic-ref"`.
- Attempted: full `server/src/__tests__/workspace-runtime.test.ts`. Four
provisioning tests failed while seeding an isolated worktree database
from the local Paperclip instance because the local plugin schema dump
contains a duplicate-column foreign key
(`plugin_content_machine_18a7bc327b.content_case_signals`). The
default-branch tests touched by the rebase conflict passed in the
focused run above.
- Checked final diff: no `pnpm-lock.yaml`, no `.github/workflows`, and
no migration-file changes relative to `master`.

## Risks

- Medium: this is a broad skills/catalog change touching CLI, server
APIs, shared contracts, adapter skill sync, and UI.
- Catalog validation and reset semantics need careful reviewer attention
because they affect reusable company setup and portability.
- No database migrations are included in this PR, so there is no
migration ordering/idempotency risk in the final diff.
- No lockfile is included by design; dependency resolution will be
handled by the repository lockfile workflow.

## Model Used

- OpenAI Codex coding agent based on GPT-5, running in Paperclip via the
`codex_local` adapter with shell, git, GitHub CLI, and code-editing tool
access. Exact hosted model build/context-window metadata is not exposed
in this runtime.

## Checklist

- [x] I have included a thinking path that traces from project context
to this change
- [x] I have specified the model used (with version and capability
details)
- [x] I have checked ROADMAP.md and confirmed this PR does not duplicate
planned core work
- [x] I have run targeted tests locally and documented the local
workspace-runtime seed failure above
- [x] I have added or updated tests where applicable
- [x] If this change affects the UI, screenshots were intentionally
omitted per PAP-10124 instructions; UI behavior is covered by tests and
reviewer inspection
- [x] I have updated relevant documentation to reflect my changes
- [x] I have considered and documented any risks above
- [x] I will address all Greptile and reviewer comments before
requesting merge

---------

Co-authored-by: Paperclip <noreply@paperclip.ing>

packages/shared/src/index.ts

@@ -296,6 +296,13 @@ export type {
   CompanySkillUsageAgent,
   CompanySkillDetail,
   CompanySkillUpdateStatus,
+  CompanySkillAuditSeverity,
+  CompanySkillAuditVerdict,
+  CompanySkillUpdateHoldReason,
+  CompanySkillAuditFinding,
+  CompanySkillAuditResult,
+  CompanySkillInstallUpdateRequest,
+  CompanySkillResetRequest,
   CompanySkillImportRequest,
   CompanySkillImportResult,
   CompanySkillProjectScanRequest,
@@ -305,6 +312,14 @@ export type {
   CompanySkillCreateRequest,
   CompanySkillFileDetail,
   CompanySkillFileUpdateRequest,
+  CatalogSkillKind,
+  CatalogSkillFileKind,
+  CatalogSkillFile,
+  CatalogSkill,
+  CatalogSkillListQuery,
+  CatalogSkillFileDetail,
+  CompanySkillInstallCatalogRequest,
+  CompanySkillInstallCatalogResult,
   AgentSkillSyncMode,
   AgentSkillState,
   AgentSkillOrigin,
@@ -1060,6 +1075,8 @@ export {
   companySkillUsageAgentSchema,
   companySkillDetailSchema,
   companySkillUpdateStatusSchema,
+  companySkillAuditFindingSchema,
+  companySkillAuditResultSchema,
   companySkillImportSchema,
   companySkillProjectScanRequestSchema,
   companySkillProjectScanSkippedSchema,
@@ -1068,6 +1085,15 @@ export {
   companySkillCreateSchema,
   companySkillFileDetailSchema,
   companySkillFileUpdateSchema,
+  catalogSkillKindSchema,
+  catalogSkillFileSchema,
+  catalogSkillSchema,
+  catalogSkillListQuerySchema,
+  catalogSkillFileDetailSchema,
+  companySkillInstallCatalogSchema,
+  companySkillInstallCatalogResultSchema,
+  companySkillInstallUpdateSchema,
+  companySkillResetSchema,
   portabilityIncludeSchema,
   portabilityEnvInputSchema,
   portabilityCompanyManifestEntrySchema,