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.gitattributes

@@ -9,7 +9,6 @@
 *.joblib filter=lfs diff=lfs merge=lfs -text
 *.lfs.* filter=lfs diff=lfs merge=lfs -text
 *.lz4 filter=lfs diff=lfs merge=lfs -text
-*.mds filter=lfs diff=lfs merge=lfs -text
 *.mlmodel filter=lfs diff=lfs merge=lfs -text
 *.model filter=lfs diff=lfs merge=lfs -text
 *.msgpack filter=lfs diff=lfs merge=lfs -text
@@ -54,6 +53,4 @@ saved_model/**/* filter=lfs diff=lfs merge=lfs -text
 *.jpg filter=lfs diff=lfs merge=lfs -text
 *.jpeg filter=lfs diff=lfs merge=lfs -text
 *.webp filter=lfs diff=lfs merge=lfs -text
-# Video files - compressed
-*.mp4 filter=lfs diff=lfs merge=lfs -text
-*.webm filter=lfs diff=lfs merge=lfs -text
+CMB-Exam/CMB-train/CMB-train-merge.json filter=lfs diff=lfs merge=lfs -text

CMB-Exam/CMB-test/CMB-test-choice-hierarchy.json

@@ -0,0 +1,51 @@
+{
+    "总题量": {
+        "总题量": 11200,
+        "医师考试": 2000,
+        "护理考试": 1600,
+        "药师考试": 3200,
+        "医技考试": 1200,
+        "专业知识考试": 1600,
+        "医学考研": 1600
+    },
+    "医师考试": {
+        "规培结业": 400,
+        "执业助理医师": 400,
+        "执业医师": 400,
+        "中级职称": 400,
+        "高级职称": 400
+    },
+    "护理考试": {
+        "护士执业资格": 400,
+        "护师执业资格": 400,
+        "主管护师": 400,
+        "高级护师": 400
+    },
+    "药师考试": {
+        "执业西药师": 400,
+        "执业中药师": 400,
+        "初级药士": 400,
+        "初级药师": 400,
+        "初级中药士": 400,
+        "初级中药师": 400,
+        "主管药师": 400,
+        "主管中药师": 400
+    },
+    "医技考试": {
+        "医技士": 400,
+        "医技师": 400,
+        "主管技师": 400
+    },
+    "专业知识考试": {
+        "基础医学": 400,
+        "临床医学": 400,
+        "预防医学与公共卫生学": 400,
+        "中医学与中药学": 400
+    },
+    "医学考研": {
+        "护理学": 400,
+        "考研政治": 400,
+        "西医综合": 400,
+        "中医综合": 400
+    }
+}

CMB-Exam/CMB-train/CMB-train-hierarchy.json

@@ -0,0 +1,51 @@
+{
+    "总题量": {
+        "总题量": 269359,
+        "医师考试": 122876,
+        "护理考试": 15279,
+        "药师考试": 30074,
+        "医技考试": 25774,
+        "专业知识考试": 60631,
+        "医学考研": 14725
+    },
+    "医师考试": {
+        "规培结业": 14201,
+        "执业助理医师": 15006,
+        "执业医师": 25231,
+        "中级职称": 55729,
+        "高级职称": 12709
+    },
+    "护理考试": {
+        "护士执业资格": 2893,
+        "护师执业资格": 3813,
+        "主管护师": 7107,
+        "高级护师": 1466
+    },
+    "药师考试": {
+        "执业西药师": 7838,
+        "执业中药师": 4050,
+        "初级药士": 2310,
+        "初级药师": 3295,
+        "初级中药士": 3092,
+        "初级中药师": 3607,
+        "主管药师": 2993,
+        "主管中药师": 2889
+    },
+    "医技考试": {
+        "医技士": 4627,
+        "医技师": 5662,
+        "主管技师": 15485
+    },
+    "专业知识考试": {
+        "基础医学": 24299,
+        "临床医学": 18753,
+        "预防医学与公共卫生学": 3332,
+        "中医学与中药学": 14247
+    },
+    "医学考研": {
+        "护理学": 1604,
+        "考研政治": 1104,
+        "西医综合": 8503,
+        "中医综合": 3514
+    }
+}

CMB-Exam/CMB-train/CMB-train-merge.json

@@ -0,0 +1,3 @@
+version https://git-lfs.github.com/spec/v1
+oid sha256:f256b724b5662a8eb666921b33c698c067b8b5857a23b4ee425c887ed7708cfb
+size 141602733

CMB-Exam/CMB-val/CMB-val-hierarchy.json

@@ -0,0 +1,42 @@
+{
+    "专业知识考试": {
+        "中医学与中药学": 10,
+        "临床医学": 10,
+        "基础医学": 10,
+        "预防医学与公共卫生学": 10
+    },
+    "医学考研": {
+        "中医综合": 10,
+        "护理学": 10,
+        "考研政治": 10,
+        "西医综合": 10
+    },
+    "医师考试": {
+        "中级职称": 10,
+        "执业助理": 10,
+        "执业医师": 10,
+        "规培结业": 10,
+        "高级职称": 10
+    },
+    "医技考试": {
+        "主管技师": 10,
+        "医技士": 10,
+        "医技师": 10
+    },
+    "护理考试": {
+        "主管护师": 10,
+        "护士执业资格": 10,
+        "护师执业资格": 10,
+        "高级护师": 10
+    },
+    "药师考试": {
+        "主管中药师": 10,
+        "主管药师": 10,
+        "初级中药士": 10,
+        "初级中药师": 10,
+        "初级药士": 10,
+        "初级药师": 10,
+        "执业中药师": 10,
+        "执业西药师": 10
+    }
+}

README.md

@@ -1,3 +1,154 @@
----
-license: apache-2.0
----
+---
+license: apache-2.0
+task_categories:
+- question-answering
+- text-generation
+language:
+- zh
+tags:
+- medical
+- biology
+- chemistry
+size_categories:
+- 100K<n<1M
+configs:
+  - config_name: CMB-Clin
+    data_files:
+      - split: test
+        path: CMB-Clin/CMB-Clin-qa.json
+  - config_name: CMB-Exam
+    data_files:
+      - split: test
+        path: CMB-Exam/CMB-test/CMB-test-choice-question-merge.json
+      - split: train
+        path: CMB-Exam/CMB-train/CMB-train-merge.json
+      - split: val
+        path: CMB-Exam/CMB-val/CMB-val-merge.json
+---
+
+# CMB: A Comprehensive  Medical Benchmark in Chinese
+![CMB](assets/title.png)
+<p align="center">
+   🌐 <a href="https://github.com/FreedomIntelligence/CMB" target="_blank">Github</a> • 🌐 <a href="https://cmedbenchmark.llmzoo.com/#home" target="_blank">Website</a> • 🤗 <a href="https://huggingface.co/datasets/FreedomIntelligence/CMB" target="_blank">HuggingFace</a>
+
+## 🌈 Update
+* **[2024.02.21]** The [answers](https://github.com/FreedomIntelligence/CMB/tree/main/data) to the CMB-Exam test has been updated and some errors caused by omissions in version management have been fixed.
+* **[2024.01.08]** In order to facilitate testing, we disclose the [answers](https://github.com/FreedomIntelligence/CMB/tree/main/data) to the CMB-Exam test
+* **[2023.09.22]** CMB is included in [OpenCompass](https://github.com/open-compass/opencompass).
+* **[2023.08.21]** [Paper](https://arxiv.org/abs/2308.08833) released.
+* **[2023.08.01]** 🎉🎉🎉 CMB is published！🎉🎉🎉
+
+
+## 🌐 Download Data
+
+- (Recommended) Download the [zip file](https://github.com/FreedomIntelligence/CMB/tree/main/data) and unzip:
+    ```bash
+    git clone "https://github.com/FreedomIntelligence/CMB.git" && cd CMB && unzip "./data/CMB.zip" -d "./data/" && rm "./data/CMB.zip"
+    ```
+- Or  load our data as follows:
+    ```python
+    from datasets import load_dataset
+    # CMB-Exam datasets （multiple-choice and multiple-answer questions）
+    exam_datasets = load_dataset('miugod/CMB','CMB-Exam')
+    # CMB-Clin datasets
+    clin_datasets = load_dataset('miugod/CMB','CMB-Clin')
+    ```
+
+  
+
+## 🥇 Leaderboard 
+
+Please Check [Leaderboard](https://cmedbenchmark.llmzoo.com/static/leaderboard.html).
+
+
+
+## 🥸 Dataset intro
+![CMB](assets/CMB-2.svg)
+### Components
+
+- CMB-Exam: Comprehensive multi-level assessment for medical knowledge
+   - Structure: 6 major categories and 28 subcategories, [View Catalog](catalog.md)
+   - CMB-test: 400 questions per subcategories, 11200 questions in total
+   - CMB-val: 280 questions with solutions and explanations; used as source for CoT and few-shot
+   - CMB-train: 269359 questions for medical knowledge injection
+    
+- CMB-Clin: 74 cases of complex medical inquires 
+
+
+### CMB-Exam Item 
+```json
+{
+    "exam_type": "医师考试",
+    "exam_class": "执业医师",
+    "exam_subject": "口腔执业医师",
+    "question": "患者，男性，11岁。近2个月来时有低热（37～38℃），全身无明显症状。查体无明显阳性体征。X线检查发现右肺中部有一直径约0.8cm类圆形病灶，边缘稍模糊，肺门淋巴结肿大。此男孩可能患",
+    "answer": "D",
+    "question_type": "单项选择题",
+    "option": {
+        "A": "小叶型肺炎",
+        "B": "浸润性肺结核",
+        "C": "继发性肺结核",
+        "D": "原发性肺结核",
+        "E": "粟粒型肺结核"
+    }
+},
+```
+- exam_type: major category
+- exam_class: sub-category
+- exam_subject: Specific departments or subdivisions of disciplines 
+- question_type: *multiple-choice (单项选择题)* or *multiple-answer (多项选择题)*
+
+
+### CMB-Clin Item 
+```json
+{
+    "id": 0,
+    "title": "案例分析-腹外疝",
+    "description": "现病史\n（1）病史摘要\n     病人，男，49岁，3小时前解大便后出现右下腹疼痛，右下腹可触及一包块，既往体健。\n（2）主诉\n     右下腹痛并自扪及包块3小时。\n\n体格检查\n体温： T 37.8℃，P 101次／分，呼吸22次/分，BP 100/60mmHg，腹软，未见胃肠型蠕动波，肝脾肋下未及，于右侧腹股沟区可扪及一圆形肿块，约4cm×4cm大小，有压痛、界欠清，且肿块位于腹股沟韧带上内方。\n\n辅助检查\n（1）实验室检查\n     血常规：WBC 5.0×109／L，N 78％。\n     尿常规正常。\n（2）多普勒超声检查\n     沿腹股沟纵切可见一多层分布的混合回声区，宽窄不等，远端膨大，边界整齐，长约4～5cm。\n（3）腹部X线检查\n     可见阶梯状液气平。",
+    "QA_pairs": [
+        {
+            "question": "简述该病人的诊断及诊断依据。",
+            "solution": "诊断：嵌顿性腹股沟斜疝合并肠梗阻。\n诊断依据：\n①右下腹痛并自扪及包块3小时；\n②有腹胀、呕吐，类似肠梗阻表现；腹部平片可见阶梯状液平，考虑肠梗阻可能；腹部B超考虑，\n腹部包��内可能为肠管可能；\n③有轻度毒性反应或是中毒反应，如 T 37.8℃，P 101次／分，白细胞中性分类78％；\n④腹股沟区包块位于腹股沟韧带上内方。"
+        },
+        {
+            "question": "简述该病人的鉴别诊断。",
+            "solution": "（1）睾丸鞘膜积液：鞘膜积液所呈现的肿块完全局限在阴囊内，其上界可以清楚地摸到；用透光试验检查肿块，鞘膜积液多为透光（阳性），而疝块则不能透光。\n（2）交通性鞘膜积液：肿块的外形与睾丸鞘膜积液相似。于每日起床后或站立活动时肿块缓慢地出现并增大。平卧或睡觉后肿块逐渐缩小，挤压肿块，其体积也可逐渐缩小。透光试验为阳性。\n（3）精索鞘膜积液：肿块较小，在腹股沟管内，牵拉同侧睾丸可见肿块移动。\n（4）隐睾：腹股沟管内下降不全的睾丸可被误诊为斜疝或精索鞘膜积液。隐睾肿块较小，挤压时可出现特有的胀痛感觉。如患侧阴囊内睾丸缺如，则诊断更为明确。\n（5）急性肠梗阻：肠管被嵌顿的疝可伴发急性肠梗阻，但不应仅满足于肠梗阻的诊断而忽略疝的存在；尤其是病人比较肥胖或疝块较小时，更易发生这类问题而导致治疗上的错误。\n（6）此外，腹股沟区肿块还应与以下疾病鉴别:肿大的淋巴结、动（静）脉瘤、软组织肿瘤、脓肿、\n圆韧带囊肿、子宫内膜异位症等。"
+        },
+        {
+            "question": "简述该病人的治疗原则。",
+            "solution": "嵌顿性疝原则上需要紧急手术治疗，以防止疝内容物坏死并解除伴发的肠梗阻。术前应做好必要的准备，如有脱水和电解质紊乱，应迅速补液加以纠正。手术的关键在于正确判断疝内容物的活力，然后根据病情确定处理方法。在扩张或切开疝环、解除疝环压迫的前提下，凡肠管呈紫黑色，失去光泽和弹性，刺激后无蠕动和相应肠系膜内无动脉搏动者，即可判定为肠坏死。如肠管尚未坏死，则可将其送回腹腔，按一般易复性疝处理，即行疝囊高位结扎+疝修补术。如肠管确已坏死或一时不能肯定肠管是否已失去活力时，则应在病人全身情况允许的前提下，切除该段肠管并进行一期吻合。凡施行肠切除吻合术的病人，因手术区污染，在高位结扎疝囊后，一般不宜作疝修补术，以免因感染而致修补失败。"
+        }
+    ]
+},
+```
+- title: name of disease
+- description: information of patient
+- QA_pairs: a series of questions and their solutions based on the description
+
+
+
+## ℹ️ How to evaluate and submit refer to [link](https://github.com/FreedomIntelligence/CMB)
+
+## 😘  Citation
+Please use the following citation if you intend to use our dataset for training or evaluation:
+
+```
+@misc{cmedbenchmark,
+  title={CMB: Chinese Medical Benchmark},
+  author={Xidong Wang*, Guiming Hardy Chen*, Dingjie Song*, Zhiyi Zhang*, Qingying Xiao, Xiangbo Wu, Feng Jiang, Jianquan Li, Benyou Wang},
+  note={Xidong Wang, Guiming Hardy Chen, Dingjie Song, and Zhiyi Zhang contributed equally to this github repo.},
+  year = {2023},
+  publisher = {GitHub},
+  journal = {GitHub repository},
+  howpublished = {\url{https://github.com/FreedomIntelligence/CMB}},
+}
+```
+
+## Acknowledgement 
+- We thank [Shenzhen Research Institute of Big Data](http://www.sribd.cn/) for their enormous support for this project.
+
+- We thank the following doctors for participating in the human evaluation of CMB-Clin:
+    
+    - 林士军 (香港中文大学（深圳）附属第二医院)
+    - 常河
+    - 许晓爽

preprocess.py

@@ -0,0 +1,55 @@
+import json
+import os
+from typing import Dict, Any, List
+
+OPTION_KEYS = ["A", "B", "C", "D", "E", "F"]
+
+
+def normalize_option(option: Dict[str, Any]) -> Dict[str, str]:
+    new_option = {}
+    option = option or {}
+    for k in OPTION_KEYS:
+        new_option[k] = str(option.get(k, "")).strip()
+    return new_option
+
+
+def normalize_item(item: Dict[str, Any], idx: int) -> Dict[str, Any]:
+    return {
+        "id": item.get("id", idx),
+        "exam_type": item.get("exam_type", ""),
+        "exam_class": item.get("exam_class", ""),
+        "exam_subject": item.get("exam_subject", ""),
+        "question": item.get("question", ""),
+        "answer": item.get("answer", ""),
+        "explanation": item.get("explanation", ""),
+        "question_type": item.get("question_type", ""),
+        "option": normalize_option(item.get("option")),
+    }
+
+
+def clean_json(input_path: str) -> None:
+    with open(input_path, "r", encoding="utf-8") as f:
+        data: List[Dict[str, Any]] = json.load(f)
+
+    cleaned = []
+    for idx, item in enumerate(data, start=1):
+        cleaned.append(normalize_item(item, idx))
+
+    base, ext = os.path.splitext(input_path)
+    output_path = f"{base}-clean{ext}"
+
+    with open(output_path, "w", encoding="utf-8") as f:
+        json.dump(cleaned, f, ensure_ascii=False, indent=2)
+
+    print(f"[OK] {output_path}  ({len(cleaned)} samples)")
+
+
+if __name__ == "__main__":
+    input_files = [
+        "CMB-Exam/CMB-train/CMB-train-merge.json",
+        "CMB-Exam/CMB-val/CMB-val-merge.json",
+        "CMB-Exam/CMB-test/CMB-test-choice-question-merge.json",
+    ]
+
+    for path in input_files:
+        clean_json(path)

read_data.py

@@ -0,0 +1,25 @@
+from datasets import load_dataset
+
+# ds = load_dataset('FreedomIntelligence/CMB', 'CMB-Clin')
+# print(ds)
+
+ds = load_dataset(
+    "json",
+    data_files={
+        "test": "CMB-Clin/CMB-Clin-qa.json",
+    }
+)
+
+print(ds["test"][0])
+
+
+ds = load_dataset(
+    "json",
+    data_files={
+        "test": "CMB-Exam/CMB-test/CMB-test-choice-question-merge-clean.json",
+        "train": "CMB-Exam/CMB-train/CMB-train-merge-clean.json",
+        "val": "CMB-Exam/CMB-val/CMB-val-merge-clean.json",
+
+    }
+)
+print(ds)