Fix hardcoded CLI version and redundant JSON flag detection

[Copilot]

Two bugs in bin/index.js: the CLI reported a hardcoded version (1.3.1) diverging from package.json, and isJson detection redundantly fell back to process.argv.includes("--json") instead of relying solely on Commander's parsed options.

Changes

• Version from package.json: Replaced .version("1.3.1") with a dynamic lookup via require("../package.json").version
• Simplified isJson detection: Removed || process.argv.includes("--json") from both isJson assignments (run command and analyze command) — Commander's options.json is sufficient

// Before
.version("1.3.1")
const isJson = Boolean(options.json || process.argv.includes("--json"));

// After
const { version } = require("../package.json");
.version(version)
const isJson = Boolean(options.json);

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