refactor(core): split index.ts and config-handler.ts into focused modules

Main entry point:
- create-hooks.ts, create-tools.ts, create-managers.ts
- plugin-interface.ts: plugin interface types
- plugin/ directory: plugin lifecycle modules

Config handler:
- agent-config-handler.ts, command-config-handler.ts
- tool-config-handler.ts, mcp-config-handler.ts
- provider-config-handler.ts, category-config-resolver.ts
- agent-priority-order.ts, prometheus-agent-config-builder.ts
- plugin-components-loader.ts

src/plugin-handlers/tool-config-handler.ts

@@ -0,0 +1,91 @@
+import type { OhMyOpenCodeConfig } from "../config";
+
+type AgentWithPermission = { permission?: Record<string, unknown> };
+
+export function applyToolConfig(params: {
+  config: Record<string, unknown>;
+  pluginConfig: OhMyOpenCodeConfig;
+  agentResult: Record<string, unknown>;
+}): void {
+  params.config.tools = {
+    ...(params.config.tools as Record<string, unknown>),
+    "grep_app_*": false,
+    LspHover: false,
+    LspCodeActions: false,
+    LspCodeActionResolve: false,
+    "task_*": false,
+    teammate: false,
+    ...(params.pluginConfig.experimental?.task_system
+      ? { todowrite: false, todoread: false }
+      : {}),
+  };
+
+  const isCliRunMode = process.env.OPENCODE_CLI_RUN_MODE === "true";
+  const questionPermission = isCliRunMode ? "deny" : "allow";
+
+  if (params.agentResult.librarian) {
+    const agent = params.agentResult.librarian as AgentWithPermission;
+    agent.permission = { ...agent.permission, "grep_app_*": "allow" };
+  }
+  if (params.agentResult["multimodal-looker"]) {
+    const agent = params.agentResult["multimodal-looker"] as AgentWithPermission;
+    agent.permission = { ...agent.permission, task: "deny", look_at: "deny" };
+  }
+  if (params.agentResult["atlas"]) {
+    const agent = params.agentResult["atlas"] as AgentWithPermission;
+    agent.permission = {
+      ...agent.permission,
+      task: "allow",
+      call_omo_agent: "deny",
+      "task_*": "allow",
+      teammate: "allow",
+    };
+  }
+  if (params.agentResult.sisyphus) {
+    const agent = params.agentResult.sisyphus as AgentWithPermission;
+    agent.permission = {
+      ...agent.permission,
+      call_omo_agent: "deny",
+      task: "allow",
+      question: questionPermission,
+      "task_*": "allow",
+      teammate: "allow",
+    };
+  }
+  if (params.agentResult.hephaestus) {
+    const agent = params.agentResult.hephaestus as AgentWithPermission;
+    agent.permission = {
+      ...agent.permission,
+      call_omo_agent: "deny",
+      task: "allow",
+      question: questionPermission,
+    };
+  }
+  if (params.agentResult["prometheus"]) {
+    const agent = params.agentResult["prometheus"] as AgentWithPermission;
+    agent.permission = {
+      ...agent.permission,
+      call_omo_agent: "deny",
+      task: "allow",
+      question: questionPermission,
+      "task_*": "allow",
+      teammate: "allow",
+    };
+  }
+  if (params.agentResult["sisyphus-junior"]) {
+    const agent = params.agentResult["sisyphus-junior"] as AgentWithPermission;
+    agent.permission = {
+      ...agent.permission,
+      task: "allow",
+      "task_*": "allow",
+      teammate: "allow",
+    };
+  }
+
+  params.config.permission = {
+    ...(params.config.permission as Record<string, unknown>),
+    webfetch: "allow",
+    external_directory: "allow",
+    task: "deny",
+  };
+}