{
  "task_id": "genome_004",
  "domain": "KEGG_GENOME",
  "autonomy_type": "ordered table",
  "oracle_output_cardinality": 2,
  "instruction": "我在为灵长类进化课准备一页讲义，想把“为什么这一支系必须从食物中获取维生素 C”的异常模式整理成一张两行对照表。请先在截至 2022 年底前已建立的灵长类基因组条目中，定位上游糖醛酸模块 M00014 仍然保留、但动物型维生素 C 合成模块 M00129 已在该下一级类群中缺失的异常类群；再核对与其对应的姐妹分支，确认该姐妹分支仍保留 M00129。最后，请输出两行对照表，列为 rank|clade_role|parent_clade|clade|anomaly_pathway|contrast_pathway|retained_upstream_module|vitamin_c_synthesis_module|vitamin_c_module_status|example_org|cutoff_year。第一行为 EXCEPTION_CLADE，第二行为 RETAINED_SISTER_CLADE；其中 vitamin_c_synthesis_module 固定填写 M00129，vitamin_c_module_status 分别写 LOST 和 RETAINED。示例物种请使用 KEGG organism code。",
  "start_url": "https://www.genome.jp/kegg/kegg2.html",
  "output_format": "请输出两行对照表，列为 rank|clade_role|parent_clade|clade|anomaly_pathway|contrast_pathway|retained_upstream_module|vitamin_c_synthesis_module|vitamin_c_module_status|example_org|cutoff_year。",
  "oracle_answer": "1|EXCEPTION_CLADE|Primates|Haplorrhini|map00053|map00040|M00014|M00129|LOST|csyr|2022\n2|RETAINED_SISTER_CLADE|Primates|Strepsirrhini|map00053|map00040|M00014|M00129|RETAINED|oga|2022",
  "metadata": {
    "State-Gated Retrieval": [
      "只在截至 2022 年底已建立的灵长类基因组条目中筛选：保留上游糖醛酸模块 M00014、但缺失动物型维生素 C 合成模块 M00129 的异常下一级类群。",
      "该异常类群必须能在同一上一级分裂下找到可对照的姐妹分支，且该姐妹分支仍保留 M00129。",
      "最终输出要把异常分支和保留姐妹分支并排整理成两行对照表，并给出路径、模块与示例物种字段。"
    ],
    "dependency_type": "Data + Control",
    "intra_chain": true,
    "inter_chain": true,
    "data_dependency": [
      "KEGG primate clade pages and genome entries yield candidate subclades and example species established through the cutoff year",
      "pathway and module views yield M00014 and M00129 presence/absence evidence for the exception clade and its sister branch",
      "final rows are produced only after the exception clade and retained sister are jointly validated under the same parent split and paired with example organisms"
    ],
    "control_dependency": [
      "the exception clade remains provisional until both the sister-branch contrast and the example-species checks succeed",
      "the comparison pathway must make both retained M00014 and missing M00129 visible in the same view",
      "the two output rows are emitted together only after the exception clade and retained sister branch are fixed under the same parent split"
    ],
    "freeze": {
      "historical_window": "primate genome entries established on or before 2022, with current KEGG clade, pathway, and module pages used as relatively stable reference information for comparing retained M00014 against lost M00129"
    },
    "answer_type": "multi-row ordered table"
  },
  "rubric": {
    "inclusion_conditions": [
      "只在截至 2022 年底已建立的灵长类基因组条目中筛选：上游糖醛酸模块 M00014 仍保留、但动物型维生素 C 合成模块 M00129 缺失的异常下一级类群。",
      "该异常类群必须存在可对照的姐妹分支，且该姐妹分支仍保留 M00129。",
      "最终输出必须把异常分支和保留姐妹分支并排整理成两行对照表，并给出路径、模块与示例物种字段。"
    ],
    "exclusion_conditions": [
      "排除停在 Simiiformes、没有继续检查更外层边界而漏掉 Haplorrhini 的结果。",
      "排除使用不能同时展示 M00014 与 M00129 差异的 pathway 视图。",
      "排除没有完成姐妹分支保留对照验证的候选类群。"
    ],
    "normalization": {
      "field_separator": "|",
      "record_separator": "\n",
      "header_row": "omit the header row; emit data rows only",
      "schema": [
        "rank",
        "clade_role",
        "parent_clade",
        "clade",
        "anomaly_pathway",
        "contrast_pathway",
        "retained_upstream_module",
        "vitamin_c_synthesis_module",
        "vitamin_c_module_status",
        "example_org",
        "cutoff_year"
      ],
      "rank": "emit 1 for EXCEPTION_CLADE and 2 for RETAINED_SISTER_CLADE",
      "clade_role": [
        "EXCEPTION_CLADE",
        "RETAINED_SISTER_CLADE"
      ],
      "pathway_normalization": "emit KEGG pathway ids with the map prefix",
      "module_normalization": "emit KEGG module ids with the leading M",
      "vitamin_c_module_status": [
        "LOST",
        "RETAINED"
      ],
      "organism_code": "use bare KEGG organism codes in lowercase, not species names",
      "cutoff_year": "use a four-digit year; this task is frozen at 2022",
      "sorting_or_selection": "emit rows in the fixed order EXCEPTION_CLADE then RETAINED_SISTER_CLADE"
    }
  }
}