refactoring

data/Australia.json

@@ -1 +1 @@
-{"columns":["VAX_LOT","Total Number of Adverse Reaction Reports","Deaths","Disabilities","Life Threatening Illnesses","Severe reports (%)"],"data":[["UNKNOWN",58,1,4,2,12.0689655172]]}
+{"columns":["Batch","Total Number of Adverse Reaction Reports","Deaths","Disabilities","Life Threatening Illnesses","Severe reports (%)"],"data":[["3002188",1,0,0,1,null],["EX2405",1,0,1,0,null],["FL350",1,0,1,0,null],["FF3438",1,0,1,0,null],["FE8163",2,0,2,0,null],["FF4222",1,0,1,0,null],["EP2163 SERIAL 1",1,1,0,0,null],["FF4206",2,0,1,0,null],["NO BATCH NUMBER",33,4,0,0,null],["UNKNOWN",58,1,4,2,null],["FA7338",1,0,0,0,null],["FE3712",1,0,0,0,null],["ER7449",1,0,0,0,null],["3006325",1,0,0,0,null],["FG1657",1,0,0,0,null],["FG3712",1,0,0,0,null],["FG7372",1,0,0,0,null],["FH3219",1,0,0,0,null],["EJ8516",1,0,0,0,null],["FL3560",1,0,0,0,null],["FN0565",1,0,0,0,null],["UNSURE",1,0,0,0,null]]}

internationalBatchCodeTables.html

@@ -14,7 +14,7 @@
   <script>
     function createEmptyBatchCodeTable() {
       const columnIndex = {
-        'VAX_LOT': 0,
+        'Batch': 0,
         'Total Number of Adverse Reaction Reports': 1,
         'Deaths': 2,
         'Disabilities': 3,
@@ -48,10 +48,10 @@
               },
               {
                 render: (data, type, row) => {
-                  const lethality = parseFloat(data);
-                  return !isNaN(lethality) ? lethality.toFixed(2) + " %" : '';
+                  const severeReports = parseFloat(data);
+                  return !isNaN(severeReports) ? severeReports.toFixed(2) + " %" : '';
                 },
-                targets: [columnIndex['Lethality']]
+                targets: [columnIndex['Severe reports (%)']]
               }
             ]
         });
@@ -107,7 +107,7 @@
   <table class="display" id="batchCodeTable">
     <thead>
       <tr>
-        <th>VAX_LOT</th>
+        <th>Batch</th>
         <th>Total Number of Adverse Reaction Reports</th>
         <th>Deaths</th>
         <th>Disabilities</th>

src/HowBadIsMyBatch.ipynb

@@ -1352,15 +1352,17 @@
    "metadata": {},
    "outputs": [],
    "source": [
-    "def createAndSaveAndDisplayBatchCodeTableByCountry(nonDomesticVaers, country):\n",
+    "def createAndSaveAndDisplayBatchCodeTableByCountry(nonDomesticVaers, country, minADRsForLethality = None):\n",
     "    batchCodeTable = InternationalLotTableFactory.createBatchCodeTableByCountry(nonDomesticVaers, country)\n",
-    "    batchCodeTable = batchCodeTable[batchCodeTable['Total Number of Adverse Reaction Reports'] > 50]\n",
+    "    batchCodeTable.index.set_names(\"Batch\", inplace = True)\n",
+    "    if minADRsForLethality is not None:\n",
+    "        batchCodeTable.loc[batchCodeTable['Total Number of Adverse Reaction Reports'] < minADRsForLethality, 'Severe reports (%)'] = np.nan\n",
     "    IOUtils.saveDataFrame(batchCodeTable, '../data/' + country)\n",
     "    display(country + \":\", batchCodeTable)\n",
     "\n",
-    "def createAndSaveAndDisplayBatchCodeTablesByCountry(nonDomesticVaers, countries):\n",
+    "def createAndSaveAndDisplayBatchCodeTablesByCountry(nonDomesticVaers, countries, minADRsForLethality = None):\n",
     "    for country in countries:\n",
-    "        createAndSaveAndDisplayBatchCodeTableByCountry(nonDomesticVaers, country)"
+    "        createAndSaveAndDisplayBatchCodeTableByCountry(nonDomesticVaers, country, minADRsForLethality)"
    ]
   },
   {
@@ -1385,7 +1387,8 @@
     "        'Sweden',\n",
     "        'Portugal',\n",
     "        'Australia'\n",
-    "    ])"
+    "    ],\n",
+    "    minADRsForLethality = 100)"
    ]
   },
   {