271 lines
11 KiB
Python
271 lines
11 KiB
Python
#!/usr/bin/env python3
|
||
# coding: utf-8
|
||
# File: MedicalGraph.py
|
||
# Author: lhy<lhy_in_blcu@126.com,https://huangyong.github.io>
|
||
# Date: 18-10-3
|
||
|
||
import os
|
||
import json
|
||
from py2neo import Graph,Node
|
||
|
||
class MedicalGraph:
|
||
def __init__(self):
|
||
cur_dir = '/'.join(os.path.abspath(__file__).split('/')[:-1])
|
||
self.data_path = os.path.join(cur_dir, 'data/medical.json')
|
||
self.g = Graph(
|
||
host="127.0.0.1", # neo4j 搭载服务器的ip地址，ifconfig可获取到
|
||
http_port=7474, # neo4j 服务器监听的端口号
|
||
user="lhy", # 数据库user name，如果没有更改过，应该是neo4j
|
||
password="lhy123")
|
||
|
||
'''读取文件'''
|
||
def read_nodes(self):
|
||
# 共７类节点
|
||
drugs = [] # 药品
|
||
foods = [] # 食物
|
||
checks = [] # 检查
|
||
departments = [] #科室
|
||
producers = [] #药品大类
|
||
diseases = [] #疾病
|
||
symptoms = []#症状
|
||
|
||
disease_infos = []#疾病信息
|
||
|
||
# 构建节点实体关系
|
||
rels_department = [] # 科室－科室关系
|
||
rels_noteat = [] # 疾病－忌吃食物关系
|
||
rels_doeat = [] # 疾病－宜吃食物关系
|
||
rels_recommandeat = [] # 疾病－推荐吃食物关系
|
||
rels_commonddrug = [] # 疾病－通用药品关系
|
||
rels_recommanddrug = [] # 疾病－热门药品关系
|
||
rels_check = [] # 疾病－检查关系
|
||
rels_drug_producer = [] # 厂商－药物关系
|
||
|
||
rels_symptom = [] #疾病症状关系
|
||
rels_acompany = [] # 疾病并发关系
|
||
rels_category = [] # 疾病与科室之间的关系
|
||
|
||
|
||
count = 0
|
||
for data in open(self.data_path):
|
||
disease_dict = {}
|
||
count += 1
|
||
print(count)
|
||
data_json = json.loads(data)
|
||
disease = data_json['name']
|
||
disease_dict['name'] = disease
|
||
diseases.append(disease)
|
||
disease_dict['desc'] = ''
|
||
disease_dict['prevent'] = ''
|
||
disease_dict['cause'] = ''
|
||
disease_dict['easy_get'] = ''
|
||
disease_dict['cure_department'] = ''
|
||
disease_dict['cure_way'] = ''
|
||
disease_dict['cure_lasttime'] = ''
|
||
disease_dict['symptom'] = ''
|
||
disease_dict['cured_prob'] = ''
|
||
|
||
if 'symptom' in data_json:
|
||
symptoms += data_json['symptom']
|
||
for symptom in data_json['symptom']:
|
||
rels_symptom.append([disease, symptom])
|
||
|
||
if 'acompany' in data_json:
|
||
for acompany in data_json['acompany']:
|
||
rels_acompany.append([disease, acompany])
|
||
|
||
if 'desc' in data_json:
|
||
disease_dict['desc'] = data_json['desc']
|
||
|
||
if 'prevent' in data_json:
|
||
disease_dict['prevent'] = data_json['prevent']
|
||
|
||
if 'cause' in data_json:
|
||
disease_dict['cause'] = data_json['cause']
|
||
|
||
if 'get_prob' in data_json:
|
||
disease_dict['get_prob'] = data_json['get_prob']
|
||
|
||
if 'easy_get' in data_json:
|
||
disease_dict['easy_get'] = data_json['easy_get']
|
||
|
||
if 'cure_department' in data_json:
|
||
cure_department = data_json['cure_department']
|
||
if len(cure_department) == 1:
|
||
rels_category.append([disease, cure_department[0]])
|
||
if len(cure_department) == 2:
|
||
big = cure_department[0]
|
||
small = cure_department[1]
|
||
rels_department.append([small, big])
|
||
rels_category.append([disease, small])
|
||
|
||
disease_dict['cure_department'] = cure_department
|
||
departments += cure_department
|
||
|
||
if 'cure_way' in data_json:
|
||
disease_dict['cure_way'] = data_json['cure_way']
|
||
|
||
if 'cure_lasttime' in data_json:
|
||
disease_dict['cure_lasttime'] = data_json['cure_lasttime']
|
||
|
||
if 'cured_prob' in data_json:
|
||
disease_dict['cured_prob'] = data_json['cured_prob']
|
||
|
||
if 'common_drug' in data_json:
|
||
common_drug = data_json['common_drug']
|
||
for drug in common_drug:
|
||
rels_commonddrug.append([disease, drug])
|
||
drugs += common_drug
|
||
|
||
if 'recommand_drug' in data_json:
|
||
recommand_drug = data_json['recommand_drug']
|
||
drugs += recommand_drug
|
||
for drug in recommand_drug:
|
||
rels_recommanddrug.append([disease, drug])
|
||
|
||
if 'not_eat' in data_json:
|
||
not_eat = data_json['not_eat']
|
||
for _not in not_eat:
|
||
rels_noteat.append([disease, _not])
|
||
|
||
foods += not_eat
|
||
do_eat = data_json['do_eat']
|
||
for _do in do_eat:
|
||
rels_doeat.append([disease, _do])
|
||
|
||
foods += do_eat
|
||
recommand_eat = data_json['recommand_eat']
|
||
|
||
for _recommand in recommand_eat:
|
||
rels_recommandeat.append([disease, _recommand])
|
||
foods += recommand_eat
|
||
|
||
if 'check' in data_json:
|
||
check = data_json['check']
|
||
for _check in check:
|
||
rels_check.append([disease, _check])
|
||
checks += check
|
||
if 'drug_detail' in data_json:
|
||
drug_detail = data_json['drug_detail']
|
||
producer = [i.split('(')[0] for i in drug_detail]
|
||
rels_drug_producer += [[i.split('(')[0], i.split('(')[-1].replace(')', '')] for i in drug_detail]
|
||
producers += producer
|
||
disease_infos.append(disease_dict)
|
||
return set(drugs), set(foods), set(checks), set(departments), set(producers), set(symptoms), set(diseases), disease_infos,\
|
||
rels_check, rels_recommandeat, rels_noteat, rels_doeat, rels_department, rels_commonddrug, rels_drug_producer, rels_recommanddrug,\
|
||
rels_symptom, rels_acompany, rels_category
|
||
|
||
'''建立节点'''
|
||
def create_node(self, label, nodes):
|
||
count = 0
|
||
for node_name in nodes:
|
||
node = Node(label, name=node_name)
|
||
self.g.create(node)
|
||
count += 1
|
||
print(count, len(nodes))
|
||
return
|
||
|
||
'''创建知识图谱中心疾病的节点'''
|
||
def create_diseases_nodes(self, disease_infos):
|
||
count = 0
|
||
for disease_dict in disease_infos:
|
||
node = Node("Disease", name=disease_dict['name'], desc=disease_dict['desc'],
|
||
prevent=disease_dict['prevent'] ,cause=disease_dict['cause'],
|
||
easy_get=disease_dict['easy_get'],cure_lasttime=disease_dict['cure_lasttime'],
|
||
cure_department=disease_dict['cure_department']
|
||
,cure_way=disease_dict['cure_way'] , cured_prob=disease_dict['cured_prob'])
|
||
self.g.create(node)
|
||
count += 1
|
||
print(count)
|
||
return
|
||
|
||
'''创建知识图谱实体节点类型schema'''
|
||
def create_graphnodes(self):
|
||
Drugs, Foods, Checks, Departments, Producers, Symptoms, Diseases, disease_infos,rels_check, rels_recommandeat, rels_noteat, rels_doeat, rels_department, rels_commonddrug, rels_drug_producer, rels_recommanddrug,rels_symptom, rels_acompany, rels_category = self.read_nodes()
|
||
self.create_diseases_nodes(disease_infos)
|
||
self.create_node('Drug', Drugs)
|
||
print(len(Drugs))
|
||
self.create_node('Food', Foods)
|
||
print(len(Foods))
|
||
self.create_node('Check', Checks)
|
||
print(len(Checks))
|
||
self.create_node('Department', Departments)
|
||
print(len(Departments))
|
||
self.create_node('Producer', Producers)
|
||
print(len(Producers))
|
||
self.create_node('Symptom', Symptoms)
|
||
return
|
||
|
||
|
||
'''创建实体关系边'''
|
||
def create_graphrels(self):
|
||
Drugs, Foods, Checks, Departments, Producers, Symptoms, Diseases, disease_infos, rels_check, rels_recommandeat, rels_noteat, rels_doeat, rels_department, rels_commonddrug, rels_drug_producer, rels_recommanddrug,rels_symptom, rels_acompany, rels_category = self.read_nodes()
|
||
self.create_relationship('Disease', 'Food', rels_recommandeat, 'recommand_eat', '推荐食谱')
|
||
self.create_relationship('Disease', 'Food', rels_noteat, 'no_eat', '忌吃')
|
||
self.create_relationship('Disease', 'Food', rels_doeat, 'do_eat', '宜吃')
|
||
self.create_relationship('Department', 'Department', rels_department, 'belongs_to', '属于')
|
||
self.create_relationship('Disease', 'Drug', rels_commonddrug, 'common_drug', '常用药品')
|
||
self.create_relationship('Producer', 'Drug', rels_drug_producer, 'drugs_of', '生产药品')
|
||
self.create_relationship('Disease', 'Drug', rels_recommanddrug, 'recommand_drug', '好评药品')
|
||
self.create_relationship('Disease', 'Check', rels_check, 'need_check', '诊断检查')
|
||
self.create_relationship('Disease', 'Symptom', rels_symptom, 'has_symptom', '症状')
|
||
self.create_relationship('Disease', 'Disease', rels_acompany, 'acompany_with', '并发症')
|
||
self.create_relationship('Disease', 'Department', rels_category, 'belongs_to', '所属科室')
|
||
|
||
'''创建实体关联边'''
|
||
def create_relationship(self, start_node, end_node, edges, rel_type, rel_name):
|
||
count = 0
|
||
# 去重处理
|
||
set_edges = []
|
||
for edge in edges:
|
||
set_edges.append('###'.join(edge))
|
||
all = len(set(set_edges))
|
||
for edge in set(set_edges):
|
||
edge = edge.split('###')
|
||
p = edge[0]
|
||
q = edge[1]
|
||
query = "match(p:%s),(q:%s) where p.name='%s'and q.name='%s' create (p)-[rel:%s{name:'%s'}]->(q)" % (
|
||
start_node, end_node, p, q, rel_type, rel_name)
|
||
try:
|
||
self.g.run(query)
|
||
count += 1
|
||
print(rel_type, count, all)
|
||
except Exception as e:
|
||
print(e)
|
||
return
|
||
|
||
'''导出数据'''
|
||
def export_data(self):
|
||
Drugs, Foods, Checks, Departments, Producers, Symptoms, Diseases, disease_infos, rels_check, rels_recommandeat, rels_noteat, rels_doeat, rels_department, rels_commonddrug, rels_drug_producer, rels_recommanddrug, rels_symptom, rels_acompany, rels_category = self.read_nodes()
|
||
f_drug = open('drug.txt', 'w+')
|
||
f_food = open('food.txt', 'w+')
|
||
f_check = open('check.txt', 'w+')
|
||
f_department = open('department.txt', 'w+')
|
||
f_producer = open('producer.txt', 'w+')
|
||
f_symptom = open('symptoms.txt', 'w+')
|
||
f_disease = open('disease.txt', 'w+')
|
||
|
||
f_drug.write('\n'.join(list(Drugs)))
|
||
f_food.write('\n'.join(list(Foods)))
|
||
f_check.write('\n'.join(list(Checks)))
|
||
f_department.write('\n'.join(list(Departments)))
|
||
f_producer.write('\n'.join(list(Producers)))
|
||
f_symptom.write('\n'.join(list(Symptoms)))
|
||
f_disease.write('\n'.join(list(Diseases)))
|
||
|
||
f_drug.close()
|
||
f_food.close()
|
||
f_check.close()
|
||
f_department.close()
|
||
f_producer.close()
|
||
f_symptom.close()
|
||
f_disease.close()
|
||
|
||
return
|
||
|
||
|
||
|
||
if __name__ == '__main__':
|
||
handler = MedicalGraph()
|
||
# handler.export_data()
|