refactor: simplify omni init command usage and update documentation and installation scripts accordingly

Author: fajarhide

docs/CLAUDE.md

@@ -52,7 +52,7 @@ src/
 ├── mcp/
 │   └── server.rs        # MCP server (5 tools: retrieve, learn, density, trust, compress)
 └── cli/
-    ├── init.rs          # omni init --hook
+    ├── init.rs          # omni init
     ├── stats.rs         # omni stats analytics dashboard
     ├── session.rs       # omni session state inspection
     ├── learn.rs         # omni learn CLI

docs/HOW_TO_USE.md

@@ -148,11 +148,11 @@ Start Claude Code normally. OMNI is now active and invisible.
 ```bash
 # Homebrew
 brew upgrade omni
-omni init --hook    # Reinstall hooks after upgrade
+omni init    # Reinstall hooks after upgrade
 
 # Manual
 curl -fsSL https://raw.githubusercontent.com/fajarhide/omni/main/scripts/install.sh | sh
-omni init --hook
+omni init
 ```
 
 See [MIGRATION.md](MIGRATION.md) for detailed upgrade instructions from 0.4.x.
@@ -794,9 +794,6 @@ When you run `omni doctor --fix`, OMNI will automatically repair:
 | Problem | Fix Applied |
 |---|---|
 | Missing `~/.omni/` directory | Creates it |
-| Claude Code hooks not installed | Runs `omni init --hook` |
-| MCP not registered | Runs `omni init --mcp` |
-| Untrusted project filters | Runs `omni trust` |
 | Broken `.toml` filter files | Renames to `.toml.bak` |
 | Historical `Unknown` stats records | Re-classifies with latest model |
 
@@ -904,7 +901,6 @@ omni init --claude     # Full Setup for Claude Code (Hooks + MCP)
 omni init --vscode     # Setup for VS Code Continue.dev
 omni init --opencode   # Setup for OpenCode plugin
 omni init --codex      # Setup for Codex CLI
-omni init --hook       # Setup Claude Hooks only
 omni init --mcp        # Setup Claude MCP Server only
 omni init --status     # Check Claude installation status
 omni init --uninstall  # Remove all OMNI components from Claude
@@ -1000,8 +996,6 @@ When `--fix` is passed, OMNI will automatically resolve detected issues:
 | Issue | Fix Applied |
 |---|---|
 | Missing `~/.omni/` directory | Creates the directory |
-| Missing Claude Code hooks | Runs `omni init --hook` |
-| Missing MCP server registration | Runs `omni init --mcp` |
 | Untrusted project filters | Runs `omni trust` on the project |
 | Invalid user filter files | Renames broken `.toml` to `.toml.bak` |
 
@@ -1128,7 +1122,6 @@ omni doctor --fix  # Self-repair
 - [ ] Run `omni learn --verify` after applying any filters
 
 ### After Upgrading OMNI
-- [ ] Run `omni init --hook` (reinstall hooks after upgrade)
 - [ ] Run `omni doctor --fix` (re-classify historical data with new model)
 - [ ] Run `omni stats` to confirm everything is working
 

docs/MIGRATION.md

@@ -85,7 +85,7 @@ omni doctor         # Verify everything
 
 ```bash
 curl -fsSL https://raw.githubusercontent.com/fajarhide/omni/main/scripts/install.sh | sh
-omni init --hook
+omni init
 omni doctor
 ```
 

scripts/install.ps1

@@ -103,7 +103,7 @@ if ($UserPath -notmatch [regex]::Escape($InstallDir)) {
 
 Write-Host ""
 Write-Host "  Next steps:"
-Write-Host "    omni init --hook   # Activate Claude Code hooks"
-Write-Host "    omni doctor        # Verify installation"
-Write-Host "    omni stats         # View savings after first session"
+Write-Host "    omni init              # Interactive setup for your preferred AI Agent"
+Write-Host "    omni doctor            # Verify installation"
+Write-Host "    omni stats             # View savings after first session"
 Write-Host ""

scripts/install.sh

@@ -165,9 +165,9 @@ main() {
 
     echo ""
     echo "  Next steps:"
-    echo "    omni init --hook   # Activate Claude Code hooks"
-    echo "    omni doctor        # Verify installation"
-    echo "    omni stats         # View savings after first session"
+    echo "    omni init              # Interactive setup for your preferred AI Agent"
+    echo "    omni doctor            # Verify installation"
+    echo "    omni stats             # View savings after first session"
     echo ""
 }
 

src/cli/doctor.rs

@@ -471,7 +471,8 @@ pub fn run(args: &[String]) -> anyhow::Result<()> {
                         local_report.filters.len().to_string().yellow(),
                         "[WARNING]".yellow().bold()
                     );
-                    warnings.push("Project filters found but not trusted. Run: `omni trust`.");
+                    warnings
+                        .push("Project filters found but not trusted. Run: `omni doctor --fix`.");
                     all_ok = false;
                 }
             }

src/main.rs

@@ -116,7 +116,10 @@ fn print_help() {
     println!("  {: <12} Show this help message", "help, -h".cyan());
 
     println!("\n{}", "EXAMPLES:".bold().bright_white());
-    println!("  omni init             {}", "# OMNI setup (interactive)".bright_black());
+    println!(
+        "  omni init             {}",
+        "# OMNI setup (interactive)".bright_black()
+    );
     println!(
         "  omni doctor           {}",
         "# Diagnose installation health".bright_black()