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b/moline_sheet_src/patient.py |
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import numpy as np |
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import re |
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import os |
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import usaddress |
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import pandas as pd |
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import nltk |
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import sys |
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US_STATES = {"AL", "AK", "AZ", "AR", "CA", "CO", "CT", "DC", "DE", "FL", "GA", |
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"HI", "ID", "IL", "IN", "IA", "KS", "KY", "LA", "ME", "MD", |
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"MA", "MI", "MN", "MS", "MO", "MT", "NE", "NV", "NH", "NJ", |
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"NM", "NY", "NC", "ND", "OH", "OK", "OR", "PA", "RI", "SC", |
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"SD", "TN", "TX", "UT", "VT", "VA", "WA", "WV", "WI", "WY"} |
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US_CITY_CORRECTS = {"st louis":"saint louis"} |
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class Patient: |
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def __init__(self,block_markers): |
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self.fields = {'address', 'adm diagnosis', 'admitting physician', 'attending physician', 'bed', 'city', |
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'coded procedure', 'contact serial #', 'dob', 'encounter date', 'guarantor', 'guarantor employer', 'guarantor id', |
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'home phone', 'hospital account', 'hospital service', 'mrn', 'name', 'patient class', 'payor', 'po_box', 'primary care provider', |
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'primary phone', 'race', 'relation to patient', 'sex', 'status', 'unit', 'street','PlaceName', 'StateName', 'ZipCode'} |
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self.pat_dic = {} |
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self.insurance_df = pd.read_excel('./Insurance Companies_Updated.xlsx') |
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self.insurance_alias = {'uhc':'united healthcare',} |
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self.update_keys(block_markers) |
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def process_gen_info(self,text_block): |
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for key, value in text_block.items(): |
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# print (key, value) |
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if key == 'COVERAGE': |
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self.process_coverage_info(value) |
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elif key == '<START>': |
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try: |
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self.pat_dic['START_name'] = value[0] |
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except: |
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print("No Start Name") |
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print("START ADDRESS:\n") |
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self.get_address(value,'START') |
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self.process_coloned(value,key) |
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else: |
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self.process_coloned(value,key) |
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self.get_insurance_medcode() |
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def process_coverage_info(self, text_block): |
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self.coverage_blocks = {'PRIMARY INSURANCE', 'SECONDARY INSURANCE'} |
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self.update_keys(self.coverage_blocks) |
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blocks = {x:[] for x in self.coverage_blocks} |
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curr_marker = '' |
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for line in text_block: |
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if any(nltk.edit_distance(line.strip(),x)<3 for x in self.coverage_blocks): |
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curr_marker = min([(x, nltk.edit_distance(line.strip(),x)) for x in self.coverage_blocks], key = lambda x: x[1])[0] |
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continue |
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elif curr_marker == '': |
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continue |
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blocks[curr_marker].append(line) |
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for key,value in blocks.items(): |
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self.process_coloned(value,key) |
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print("\n" + key) |
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print(value) |
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self.get_address(value,key) |
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def process_coloned(self,text_block,key): |
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for line in text_block: |
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curr_line = line.strip().lower().split(':') |
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if any(field == curr_line[0] for field in self.fields) and len(curr_line)>1 and '' not in curr_line: |
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if key != '<START>': |
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self.pat_dic[key+ '_' + curr_line[0].strip()] = curr_line[1].strip() |
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else: |
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self.pat_dic[curr_line[0].strip()] = curr_line[1].strip() |
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def get_address(self,text_block,key): |
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block_string = ' '.join(text_block).lower() |
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po_pattern = re.compile(r'(po box)\s*\d+') |
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po_box = re.search(po_pattern, block_string) |
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if po_box != None: |
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self.pat_dic[key+ '_' + 'po_box'] = po_box[0].split()[-1] |
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# add_pattern = re.compile(r'([A-Z,a-z,0-9][^.!\-:;,\s]+)[,|\s]+([A-Z,a-z][^.!\-:;]+?)\s*(\d{5})') |
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add_pattern = re.compile(r'([A-Z,a-z,0-9][^!\-:;,]+)[,|\s]+([A-Z,a-z][^.!\-:;]+?)\s*(\d{5})') |
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addresses = [] |
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for line in text_block: |
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addresses.append(re.findall(add_pattern, line.lower())) |
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print(addresses) |
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for matches in addresses: |
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if len(matches) > 0: |
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try: |
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tags = usaddress.tag(' '.join(matches[0]).replace('.',''))[0] |
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if 'PlaceName' in tags.keys() and 'StateName' in tags.keys() and tags['StateName'].upper() in US_STATES: |
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self.pat_dic[key+ '_' + 'address'] = ' '.join(matches[0]).replace('.','') |
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self.pat_dic[key+'_' + 'PlaceName'] = tags['PlaceName'] |
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self.pat_dic[key+'_' + 'StateName'] = tags['StateName'] |
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self.pat_dic[key+'_' + 'ZipCode'] = tags['ZipCode'] |
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except: |
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print ("Unexpected error:", sys.exc_info()[0]) |
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for matches in text_block: |
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if len(matches) > 0: |
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try: |
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main_tags = usaddress.tag(matches.lower()) |
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tags = main_tags[0] |
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if len(main_tags) > 0: |
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if "StreetName" in tags.keys() and "AddressNumber" in tags.keys() and main_tags[1] == 'Street Address' and ('SubaddressType' not in tags.keys() and 'Recipient' not in tags.keys()): |
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if tags["AddressNumber"].isdigit(): |
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print(tags) |
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self.pat_dic[key+ '_' + 'street'] = matches.lower() |
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except: |
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print ("Unexpected error:", sys.exc_info()[0]) |
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def update_keys(self,block_markers): |
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for key in self.fields: |
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for pref in block_markers: |
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if pref != '<START>': |
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self.pat_dic[pref+ '_' + key] = None |
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else: |
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self.pat_dic[key] = None |
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def get_insurance_medcode(self): |
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for cov_block in self.coverage_blocks: |
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print (cov_block, self.pat_dic[cov_block+ '_' + 'po_box'],self.pat_dic[cov_block + '_' + 'address']) |
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if self.pat_dic[cov_block + '_' + 'address'] != None and (self.pat_dic[cov_block+ '_' + 'po_box'] != None or self.pat_dic[cov_block+ '_' + 'street'] != None): |
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tags_add = usaddress.tag(self.pat_dic[cov_block + '_' + 'address'])[0] |
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for word, replacement in US_CITY_CORRECTS.items(): |
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tags_add['PlaceName'] = tags_add['PlaceName'].replace(word, replacement) |
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print(tags_add) |
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if self.pat_dic[cov_block+ '_' + 'po_box'] != None: |
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companies_df = self.insurance_df.loc[(self.insurance_df['Address'] == "PO BOX " + self.pat_dic[cov_block + '_' + 'po_box']) & |
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(self.insurance_df['City'] == tags_add['PlaceName'].upper()) & |
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(self.insurance_df['St'] == tags_add['StateName'].upper())] |
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elif self.pat_dic[cov_block+ '_' + 'street'] != None: |
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companies_df = self.insurance_df.loc[(self.insurance_df['Address'] == self.pat_dic[cov_block + '_' + 'street'].upper()) & |
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(self.insurance_df['City'] == tags_add['PlaceName'].upper()) & |
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(self.insurance_df['St'] == tags_add['StateName'].upper())] |
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if not companies_df.empty: |
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print(companies_df) |
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if len(companies_df.index) > 1 and self.pat_dic[cov_block + "_payor"] != None: |
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print(self.pat_dic[cov_block + "_payor"]) |
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min_dis = (0,10000) |
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company_payor = self.pat_dic[cov_block + "_payor"] |
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for word, replacement in self.insurance_alias.items(): |
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company_payor = company_payor.replace(word, replacement) |
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for index, row in companies_df.iterrows(): |
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min_dis = min((index,nltk.edit_distance(company_payor, row["Insurance Company Name"].lower())) , min_dis, key=lambda x: x[1]) |
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self.pat_dic[cov_block + "_mednetcode"] = companies_df[companies_df.index == min_dis[0]]['MedNetCode'].item() |
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print("MULTIPLE",companies_df[companies_df.index == min_dis[0]]['Insurance Company Name']) |
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else: |
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self.pat_dic[cov_block + "_mednetcode"] = companies_df.iloc[0]['MedNetCode'] |
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else: |
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self.pat_dic[cov_block + "_mednetcode"] = None |
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else: |
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self.pat_dic[cov_block + "_mednetcode"] = None |
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# print(self.pat_dic[cov_block + "_mednetcode"]) |
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def csv_rep(self): |
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return self.pat_dic |