64 lines
2 KiB
Python
Executable file
64 lines
2 KiB
Python
Executable file
#!/usr/bin/env python
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# -*- coding: utf-8 -*-
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import os
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import sys
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import re
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# Add repository root and 'ntuh' directory to sys.path
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script_dir = os.path.dirname(os.path.abspath(__file__))
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base_dir = os.path.dirname(script_dir)
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ntuh_dir = os.path.join(base_dir, 'ntuh')
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if base_dir not in sys.path:
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sys.path.insert(0, base_dir)
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if ntuh_dir not in sys.path:
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sys.path.insert(0, ntuh_dir)
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os.environ.setdefault('DJANGO_SETTINGS_MODULE', 'ntuh.settings')
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import django
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django.setup()
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import pandas as pd
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from registry.models import PathologyReport
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illegal_re = re.compile(r'[\x00-\x08\x0b-\x0c\x0e-\x1f]')
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def clean_string_for_excel(val):
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if not isinstance(val, str):
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return val
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# Remove illegal XML / openpyxl control characters
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val = illegal_re.sub('', val)
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# Strip unnecessary head, style, script, meta, link tags so report body fits within cell limits
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h = re.sub(r'<(?:head|style|script|meta|link)[^>]*?>.*?</(?:head|style|script|meta|link)>', '', val, flags=re.DOTALL | re.IGNORECASE)
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h = re.sub(r'<(?:meta|link)[^>]*?>', '', h, flags=re.IGNORECASE)
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h = re.sub(r'\n\s*\n', '\n', h)
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return h.strip()
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def fetch_pathology_reports(output_file=None):
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if output_file is None:
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output_file = os.path.join(script_dir, 'registry_pathologyreport.xlsx')
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print(f"Fetching PathologyReport records from database...")
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qs = PathologyReport.objects.all().values()
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data = list(qs)
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print(f"Cleaning string fields & HTML body for Excel cell limit...")
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for item in data:
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for k, v in item.items():
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if isinstance(v, str):
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item[k] = clean_string_for_excel(v)
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df = pd.DataFrame(data)
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print(f"Fetched {len(df)} rows. Writing to {output_file}...")
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df.to_excel(output_file, index=False)
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print(f"Successfully exported {len(df)} rows to {output_file}")
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if __name__ == '__main__':
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default_output = os.path.join(script_dir, 'registry_pathologyreport.xlsx')
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target_path = sys.argv[1] if len(sys.argv) > 1 else default_output
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fetch_pathology_reports(target_path)
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