chore: remove all deprecated code

- Remove createThreadCas alias (CAS is global, not per-thread)
- Remove formatSkillDoc() legacy compat shim
- Remove help command (replaced by skill)
- Remove all 13 DEPRECATED_ALIASES flat commands + printDeprecation
- Fix CAS prompts in develop roles: remove stale <THREAD_ID> param
- Update README.md to remove createThreadCas reference
- Net: -86 lines, 241 tests pass

Closes #114

README.md

@@ -48,7 +48,7 @@ uncaged-workflow run solve-issue --prompt "Fix bug #42"
 ## CLI Usage
 
 ```bash
-uncaged-workflow help              # Show all commands
+uncaged-workflow                   # Print full command usage (exits with status 1)
 uncaged-workflow workflow list     # List registered workflows
 uncaged-workflow run <name>        # Start a workflow thread
 uncaged-workflow thread list       # List all threads
@@ -56,7 +56,7 @@ uncaged-workflow thread show <id>  # Inspect a thread
 uncaged-workflow skill             # Agent-consumable reference docs
 ```
 
-See `uncaged-workflow help` for the full command reference.
+Run `uncaged-workflow` with no arguments to print usage, or `uncaged-workflow skill cli` for the full CLI skill reference.
 
 ## Development
 

packages/cli-workflow/__tests__/help.test.ts

@@ -1,21 +1,11 @@
 import { describe, expect, test } from "bun:test";
 import { formatCliUsage, runCli } from "../src/cli-dispatch.js";
-import {
-  formatSkillDoc,
-  formatSkillIndex,
-  formatSkillTopic,
-  getSkillTopics,
-} from "../src/skill.js";
+import { formatSkillIndex, formatSkillTopic, getSkillTopics } from "../src/skill.js";
 
 const STORAGE_ROOT = "/tmp/help-test-storage";
 
-describe("help command", () => {
-  test("help returns 0", async () => {
-    const code = await runCli(STORAGE_ROOT, ["help"]);
-    expect(code).toBe(0);
-  });
-
-  test("no args prints usage (not red) and returns 1", async () => {
+describe("runCli usage", () => {
+  test("no args prints usage and returns 1", async () => {
     const code = await runCli(STORAGE_ROOT, []);
     expect(code).toBe(1);
   });
@@ -70,13 +60,6 @@ describe("--help flag on groups", () => {
   });
 });
 
-describe("legacy help --skill compat", () => {
-  test("help --skill still works (lists topics)", async () => {
-    const code = await runCli(STORAGE_ROOT, ["help", "--skill"]);
-    expect(code).toBe(0);
-  });
-});
-
 describe("getSkillTopics", () => {
   test("returns all topics", () => {
     const topics = getSkillTopics();
@@ -128,8 +111,13 @@ describe("formatCliUsage", () => {
   });
 });
 
-describe("formatSkillTopic('cli') — legacy formatSkillDoc", () => {
-  const doc = formatSkillDoc();
+const cliSkillDoc = formatSkillTopic("cli");
+if (cliSkillDoc === null) {
+  throw new Error("BUG: cli skill topic missing");
+}
+
+describe("formatSkillTopic('cli')", () => {
+  const doc = cliSkillDoc;
 
   test("contains title", () => {
     expect(doc).toContain("# uncaged-workflow CLI Reference");

packages/cli-workflow/src/cli-dispatch.ts

@@ -1,29 +1,11 @@
 import type { CommandEntry, DispatchFn } from "./cli-command-types.js";
-import { printCliError, printCliLine, printCliWarn } from "./cli-output.js";
+import { printCliError, printCliLine } from "./cli-output.js";
 import { getCommandRegistry } from "./cli-registry.js";
 import { formatCliUsage as formatCliUsageWithGroups } from "./cli-usage.js";
-import { createCasDispatcher, dispatchGc } from "./commands/cas/index.js";
+import { createCasDispatcher } from "./commands/cas/index.js";
 import { createInitDispatcher } from "./commands/init/index.js";
-import {
-  createThreadDispatcher,
-  dispatchFork,
-  dispatchKill,
-  dispatchLive,
-  dispatchPause,
-  dispatchPs,
-  dispatchResume,
-  dispatchRun,
-  dispatchThreadList,
-} from "./commands/thread/index.js";
-import {
-  createWorkflowDispatcher,
-  dispatchAdd,
-  dispatchHistory,
-  dispatchList,
-  dispatchRemove,
-  dispatchRollback,
-  dispatchShow,
-} from "./commands/workflow/index.js";
+import { createThreadDispatcher, dispatchLive, dispatchRun } from "./commands/thread/index.js";
+import { createWorkflowDispatcher } from "./commands/workflow/index.js";
 import { formatSkillIndex, formatSkillTopic, getSkillTopics } from "./skill.js";
 
 export type { CommandEntry, CommandGroup, DispatchFn } from "./cli-command-types.js";
@@ -54,15 +36,11 @@ function dispatchGroup(
   return entry.handler(storageRoot, argv.slice(1));
 }
 
-function printDeprecation(oldCmd: string, newCmd: string): void {
-  printCliWarn(`⚠ "${oldCmd}" is deprecated, use "${newCmd}" instead`);
-}
-
 export function formatCliUsage(): string {
   return formatCliUsageWithGroups(getCommandRegistry(), getSkillTopics());
 }
 
-const dispatchWorkflow = createWorkflowDispatcher({ dispatchGroup, printDeprecation });
+const dispatchWorkflow = createWorkflowDispatcher({ dispatchGroup });
 const dispatchThread = createThreadDispatcher({ dispatchGroup });
 const dispatchCas = createCasDispatcher({ dispatchGroup });
 const dispatchInit = createInitDispatcher({ dispatchGroup });
@@ -85,43 +63,16 @@ async function dispatchSkill(_storageRoot: string, argv: string[]): Promise<numb
   return showSkillDocOrIndex(argv[0]);
 }
 
-async function dispatchHelp(_storageRoot: string, argv: string[]): Promise<number> {
-  printCliWarn('⚠ "help" is deprecated, use "skill" instead');
-  const skillIdx = argv.indexOf("--skill");
-  if (skillIdx !== -1) {
-    return showSkillDocOrIndex(argv[skillIdx + 1]);
-  }
-  printCliLine(formatCliUsage());
-  return 0;
-}
-
 const COMMAND_TABLE: Record<string, DispatchFn> = {
   workflow: dispatchWorkflow,
   thread: dispatchThread,
   cas: dispatchCas,
   init: dispatchInit,
-  help: dispatchHelp,
   skill: dispatchSkill,
   run: dispatchRun,
   live: dispatchLive,
 };
 
-const DEPRECATED_ALIASES: Record<string, { newCmd: string; handler: DispatchFn }> = {
-  add: { newCmd: "workflow add", handler: dispatchAdd },
-  list: { newCmd: "workflow list", handler: dispatchList },
-  show: { newCmd: "workflow show", handler: dispatchShow },
-  remove: { newCmd: "workflow rm", handler: dispatchRemove },
-  ps: { newCmd: "thread ps", handler: dispatchPs },
-  kill: { newCmd: "thread kill", handler: dispatchKill },
-  pause: { newCmd: "thread pause", handler: dispatchPause },
-  resume: { newCmd: "thread resume", handler: dispatchResume },
-  threads: { newCmd: "thread list", handler: dispatchThreadList },
-  fork: { newCmd: "thread fork", handler: dispatchFork },
-  gc: { newCmd: "cas gc", handler: dispatchGc },
-  history: { newCmd: "workflow history", handler: dispatchHistory },
-  rollback: { newCmd: "workflow rollback", handler: dispatchRollback },
-};
-
 export async function runCli(storageRoot: string, argv: string[]): Promise<number> {
   if (argv.length === 0) {
     printCliLine(formatCliUsage());
@@ -139,12 +90,6 @@ export async function runCli(storageRoot: string, argv: string[]): Promise<numbe
     return dispatch(storageRoot, rest);
   }
 
-  const deprecated = DEPRECATED_ALIASES[command];
-  if (deprecated !== undefined) {
-    printDeprecation(command, deprecated.newCmd);
-    return deprecated.handler(storageRoot, rest);
-  }
-
   printCliError(`${formatCliUsage()}\n\nerror: unknown command ${command}`);
   return 1;
 }

packages/cli-workflow/src/commands/workflow/dispatch.ts

@@ -142,7 +142,7 @@ export const WORKFLOW_SUBCOMMAND_TABLE: Record<string, CommandEntry> = {
 };
 
 export function createWorkflowDispatcher(deps: WorkflowDispatchDeps) {
-  const { dispatchGroup, printDeprecation } = deps;
+  const { dispatchGroup } = deps;
   return async function dispatchWorkflow(storageRoot: string, argv: string[]): Promise<number> {
     const result = dispatchGroup("workflow", WORKFLOW_SUBCOMMAND_TABLE, storageRoot, argv);
     if (result !== null) {
@@ -150,7 +150,6 @@ export function createWorkflowDispatcher(deps: WorkflowDispatchDeps) {
     }
     const sub = argv[0];
     if (sub === "remove") {
-      printDeprecation("workflow remove", "workflow rm");
       return dispatchRemove(storageRoot, argv.slice(1));
     }
     printCliError(`${usageText()}\n\nerror: unknown workflow subcommand: ${sub}`);

packages/cli-workflow/src/commands/workflow/types.ts

@@ -14,5 +14,4 @@ export type CmdAddSuccess = {
 
 export type WorkflowDispatchDeps = {
   dispatchGroup: DispatchGroupFn;
-  printDeprecation: (oldCmd: string, newCmd: string) => void;
 };

packages/cli-workflow/src/skill.ts

@@ -229,10 +229,3 @@ uncaged-workflow live --latest
 Bundles are immutable and identified by XXH64 hash. Re-registering a workflow with a new bundle creates a new version. Use \`workflow history\` and \`workflow rollback\` to manage versions.
 `;
 }
-
-// ── Legacy compat ──────────────────────────────────────────────────────
-
-/** @deprecated Use formatSkillTopic("cli") instead */
-export function formatSkillDoc(): string {
-  return formatSkillCli();
-}

packages/workflow-template-develop/src/roles/coder.ts

@@ -15,7 +15,7 @@ Run \`uncaged-workflow skill develop\` for thread ID lookup, CAS commands, and m
 
 ## Reading phase details
 
-Each planner phase has a content-hash and title. Read full details with \`uncaged-workflow cas get <THREAD_ID> <HASH>\`.
+Each planner phase has a content-hash and title. Read full details with \`uncaged-workflow cas get <HASH>\`.
 
 The thread ID (26-char Crockford Base32) appears in the first message. If unsure, run \`uncaged-workflow thread list\`.
 

packages/workflow-template-develop/src/roles/planner.ts

@@ -18,7 +18,7 @@ Run \`uncaged-workflow skill develop\` for thread ID lookup, CAS commands, and m
 
 ## Storing phase details — MANDATORY
 
-For each phase, store its full detail text in CAS via \`uncaged-workflow cas put <THREAD_ID> '<content>'\`. The command prints a content-hash — use that as the phase identifier.
+For each phase, store its full detail text in CAS via \`uncaged-workflow cas put '<content>'\`. The command prints a content-hash — use that as the phase identifier.
 
 The thread ID (26-char Crockford Base32) appears in the first message. If unsure, run \`uncaged-workflow thread list\`.
 

packages/workflow/README.md

@@ -27,7 +27,7 @@ import { createWorkflow, readWorkflowRegistry, executeThread } from "@uncaged/wo
 | **Types** | `WorkflowDefinition`, `WorkflowFn`, `AgentFn`, `AgentBinding`, `Moderator`, `RoleDefinition`, `ThreadContext`, `LlmProvider`, `Result` shape via `ok` / `err`, `START` / `END` |
 | **Bundle** | `buildDescriptor`, `extractBundleExports`, `validateWorkflowBundle`, `validateWorkflowDescriptor`, `WorkflowDescriptor`, `WorkflowRoleDescriptor` |
 | **Registry** | `readWorkflowRegistry`, `writeWorkflowRegistry`, `registerWorkflowVersion`, `workflowRegistryPath`, YAML helpers |
-| **CAS** | `createCasStore`, `createThreadCas`, Merkle helpers (`putStepMerkleNode`, `getContentMerklePayload`, …), `hashWorkflowBundleBytes` |
+| **CAS** | `createCasStore`, Merkle helpers (`putStepMerkleNode`, `getContentMerklePayload`, …), `hashWorkflowBundleBytes` |
 | **Engine** | `createWorkflow`, `executeThread`, `parseThreadDataJsonl`, fork helpers, `garbageCollectCas` |
 | **Extract / LLM tools** | `llmExtract`, `reactExtract`, `createExtract`, `getExtractProvider` |
 | **Agent bridge** | `workflowAsAgent` — expose a registered workflow as an agent-backed role |

packages/workflow/__tests__/cas.test.ts

@@ -3,15 +3,9 @@ import { mkdtemp, rm } from "node:fs/promises";
 import { tmpdir } from "node:os";
 import { join } from "node:path";
 
-import { createCasStore, createThreadCas } from "../src/cas/cas.js";
+import { createCasStore } from "../src/cas/cas.js";
 import { hashString } from "../src/cas/hash.js";
 
-describe("cas module exports", () => {
-  test("createThreadCas is a deprecated alias of createCasStore", () => {
-    expect(createThreadCas).toBe(createCasStore);
-  });
-});
-
 describe("createCasStore", () => {
   let casDir: string;
 

packages/workflow/src/cas/cas.ts

@@ -62,6 +62,3 @@ export function createCasStore(casDir: string): CasStore {
     },
   };
 }
-
-/** @deprecated Use {@link createCasStore} — CAS is global, not per-thread. */
-export const createThreadCas = createCasStore;

packages/workflow/src/cas/index.ts

@@ -1,4 +1,4 @@
-export { createCasStore, createThreadCas } from "./cas.js";
+export { createCasStore } from "./cas.js";
 export { hashString, hashWorkflowBundleBytes } from "./hash.js";
 export {
   createContentMerkleNode,

packages/workflow/src/index.ts

@@ -14,7 +14,6 @@ export {
   type CasStore,
   createCasStore,
   createContentMerkleNode,
-  createThreadCas,
   getContentMerklePayload,
   hashString,
   hashWorkflowBundleBytes,