57 lines
1.9 KiB
Python
57 lines
1.9 KiB
Python
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#! /usr/bin/env python3
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import argparse
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import json
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import os
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import requests
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user_agent = "Mozilla/5.0 (Macintosh; Intel Mac OS X 10_13_6) AppleWebKit/537.36 (KHTML, like Gecko) " \
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"Chrome/74.0.3729.169 Safari/537.36"
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header = {"User-Agent": user_agent}
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def lims_login():
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postUrl = "https://dna.jmdna.com/user/login/auth"
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postData = {"userName": "zlseq2", "password": "seq345@JM"}
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try:
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response = requests.post(postUrl, params=postData, headers=header)
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token = json.loads(response.text)["data"]["accessToken"]
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except Exception as e:
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raise UserWarning('lims连接失败！请查看', e)
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return token
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def lims_search(barcode):
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token = lims_login()
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payload = {'search[barcode][value]': barcode, "accessToken": token, 'search[report][value]': 0,
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'format': '2', 'size': '1000', 'search[barcode][query]:': "eq"}
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try:
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sample_msg = requests.get("https://dna.jmdna.com/sample/sample/search?", params=payload,
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timeout=20, headers=header).text
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except Exception as e:
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raise UserWarning(f'获取lims系统请求失败 {e}')
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lims_infos = json.loads(sample_msg)
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code = lims_infos['code']
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if code != '-1':
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msg = lims_infos['message']
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raise UserWarning(f'获取lims系统请求失败 {msg}')
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return lims_infos
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if __name__ == '__main__':
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parser = argparse.ArgumentParser(description="JM get sampleinfo from lims ")
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parser.add_argument('-s', '--barcode', help="sample's barcode", required=True)
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parser.add_argument('-o', '--output_dir', help="Output directory, default ./", default='')
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args = parser.parse_args()
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barcorde = args.barcode
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sample_data = lims_search(barcorde)
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json_out = os.path.join(args.output_dir, 'qc', f'{barcorde}_post.json')
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with open(json_out, 'w', encoding='utf8') as ff:
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json.dump(sample_data, ff, ensure_ascii=False, indent=4)
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