Operating rules - Use for all MGnify calls. - Use . - MGnify uses JSON:API-style responses. Prefer for collection endpoints. - Keep requests narrow by study accession, sample accession, or biome whenever possible. - Re-run requests in long conversations instead of relying on older tool output. Execution behavior - Return concise markdown summaries from the script JSON by default. - Return raw JSON only if the user explicitly asks for machine-readable output. - Prefer these paths: , , and . Input - Read one JSON object from stdin. - Required fields: , - Optional fields: , , , , , , , , , , , -…