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adding ADR column to vaccineDistributionByZipcode table

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frankknoll
2023-03-10 11:17:21 +01:00
parent 27920d536f
commit 3f38e066a5
4 changed files with 103 additions and 72 deletions
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15
src/ADRColumnAdder.py Normal file
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@@ -0,0 +1,15 @@
import pandas as pd
class ADRColumnAdder:
def __init__(self, ADR_by_Batchcode):
self.ADR_by_Batchcode = ADR_by_Batchcode
def addADRColumn(self, vaccineDistributionByZipcode):
return pd.merge(
vaccineDistributionByZipcode,
self.ADR_by_Batchcode,
how = 'left',
left_on = 'LOT_NUMBER',
right_index = True,
validate = 'many_to_one')

5
src/ADR_by_Batchcode_Table_Factory.py Normal file
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@@ -0,0 +1,5 @@
from BatchCodeTableFactory import BatchCodeTableFactory
def create_ADR_by_Batchcode_Table_4USA(internationalVaersCovid19):
batchCodeTable4USA = BatchCodeTableFactory(internationalVaersCovid19).createBatchCodeTableByCountry('United States')
return batchCodeTable4USA[['Adverse Reaction Reports']]

83
src/HowBadIsMyBatch.ipynb
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@@ -163,6 +163,89 @@
" minADRsForLethality = 100,\n", " minADRsForLethality = 100,\n",
" onCountryProcessed = display)" " onCountryProcessed = display)"
] ]
},
{
"attachments": {},
"cell_type": "markdown",
"id": "2d93b511",
"metadata": {},
"source": [
"# Vaccine Distribution by Zipcode"
]
},
{
"cell_type": "code",
"execution_count": null,
"id": "cfcbad44",
"metadata": {},
"outputs": [],
"source": [
"vaccineDistributionByZipcode = pd.read_excel(\n",
" io = 'tmp/Amended-22-01962-Pfizer-2022-0426-pulled-2022-0823.xlsx',\n",
" usecols = ['PROVIDER_NAME', 'ZIPCODE_SHP', 'LOT_NUMBER', 'DOSES_SHIPPED'])\n",
"vaccineDistributionByZipcode"
]
},
{
"cell_type": "code",
"execution_count": null,
"id": "59c745d2",
"metadata": {},
"outputs": [],
"source": [
"from VaccineDistributionByZipcodeSimplifier import VaccineDistributionByZipcodeSimplifier\n",
"\n",
"vaccineDistributionByZipcode = VaccineDistributionByZipcodeSimplifier.sumDoses(vaccineDistributionByZipcode)\n",
"vaccineDistributionByZipcode"
]
},
{
"cell_type": "code",
"execution_count": null,
"id": "f77505c6",
"metadata": {},
"outputs": [],
"source": [
"from ADR_by_Batchcode_Table_Factory import create_ADR_by_Batchcode_Table_4USA\n",
"\n",
"ADR_by_Batchcode_Table_4USA = create_ADR_by_Batchcode_Table_4USA(internationalVaersCovid19)\n",
"ADR_by_Batchcode_Table_4USA"
]
},
{
"cell_type": "code",
"execution_count": null,
"id": "99120c77",
"metadata": {},
"outputs": [],
"source": [
"from ADRColumnAdder import ADRColumnAdder\n",
"\n",
"vaccineDistributionByZipcode = ADRColumnAdder(ADR_by_Batchcode_Table_4USA).addADRColumn(vaccineDistributionByZipcode)\n",
"vaccineDistributionByZipcode"
]
},
{
"cell_type": "code",
"execution_count": null,
"id": "f68c72d0",
"metadata": {},
"outputs": [],
"source": [
"vaccineDistributionByZipcode.to_excel('tmp/Amended-22-01962-Pfizer-2022-0426-pulled-2022-0823_sumDoses.xlsx')"
]
},
{
"cell_type": "code",
"execution_count": null,
"id": "9b8f0b6e",
"metadata": {},
"outputs": [],
"source": [
"from IOUtils import IOUtils\n",
"\n",
"IOUtils.saveDataFrameAsJson(vaccineDistributionByZipcode, '../docs/data/vaccineDistributionByZipcode/VaccineDistributionByZipcode.json')"
]
} }
], ],
"metadata": { "metadata": {

72
src/VaccineDistributionByZipcode.ipynb
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@@ -1,72 +0,0 @@
{
"cells": [
{
"cell_type": "code",
"execution_count": null,
"metadata": {},
"outputs": [],
"source": [
"import pandas as pd\n",
"\n",
"vaccineDistributionByZipcode = pd.read_excel(\n",
" io = 'tmp/Amended-22-01962-Pfizer-2022-0426-pulled-2022-0823.xlsx',\n",
" usecols = ['PROVIDER_NAME', 'ZIPCODE_SHP', 'LOT_NUMBER', 'DOSES_SHIPPED'])\n",
"vaccineDistributionByZipcode"
]
},
{
"cell_type": "code",
"execution_count": null,
"metadata": {},
"outputs": [],
"source": [
"from VaccineDistributionByZipcodeSimplifier import VaccineDistributionByZipcodeSimplifier\n",
"\n",
"vaccineDistributionByZipcode = VaccineDistributionByZipcodeSimplifier.sumDoses(vaccineDistributionByZipcode)\n",
"vaccineDistributionByZipcode"
]
},
{
"cell_type": "code",
"execution_count": null,
"metadata": {},
"outputs": [],
"source": [
"vaccineDistributionByZipcode.to_excel('tmp/Amended-22-01962-Pfizer-2022-0426-pulled-2022-0823_sumDoses.xlsx')"
]
},
{
"cell_type": "code",
"execution_count": null,
"metadata": {},
"outputs": [],
"source": [
"from IOUtils import IOUtils\n",
"\n",
"IOUtils.saveDataFrameAsJson(vaccineDistributionByZipcode, '../docs/data/vaccineDistributionByZipcode/VaccineDistributionByZipcode.json')"
]
}
],
"metadata": {
"kernelspec": {
"display_name": "howbadismybatch-venv-kernel",
"language": "python",
"name": "howbadismybatch-venv-kernel"
},
"language_info": {
"codemirror_mode": {
"name": "ipython",
"version": 3
},
"file_extension": ".py",
"mimetype": "text/x-python",
"name": "python",
"nbconvert_exporter": "python",
"pygments_lexer": "ipython3",
"version": "3.10.8"
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},
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