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refactoring

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frankknoll
2022-02-10 01:41:14 +01:00
parent 079ac6737a
commit 94f31286a0
1 changed files with 8 additions and 6 deletions
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14
HowBadIsMyBatch.ipynb
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@@ -1176,7 +1176,10 @@
" dataFrame = DataFrameFilter().filterByCovid19(vaers)\n", " dataFrame = DataFrameFilter().filterByCovid19(vaers)\n",
" dataFrame = DataFrameFilter().filterBy(dataFrame, manufacturer = manufacturer)\n", " dataFrame = DataFrameFilter().filterBy(dataFrame, manufacturer = manufacturer)\n",
" batchCodeTable = BatchCodeTableFactory._createSummationTableByVAX_LOT(dataFrame)[['ADRs']].reset_index()\n", " batchCodeTable = BatchCodeTableFactory._createSummationTableByVAX_LOT(dataFrame)[['ADRs']].reset_index()\n",
" return batchCodeTable\n" " return batchCodeTable\n",
"\n",
"def filterColumnOfDataFrameWithRegexp(dataFrame, column, regexp):\n",
" return dataFrame[dataFrame[column].apply(lambda columnValue: bool(regexp.match(columnValue)))]\n"
] ]
}, },
{ {
@@ -1193,9 +1196,9 @@
"batchCodeTable = createADRsByVAX_LOTTable(vaers, \"PFIZER\\BIONTECH\")\n", "batchCodeTable = createADRsByVAX_LOTTable(vaers, \"PFIZER\\BIONTECH\")\n",
"batchCodeTable['VAX_LOT_PREFIX'] = batchCodeTable['VAX_LOT'].str[:2]\n", "batchCodeTable['VAX_LOT_PREFIX'] = batchCodeTable['VAX_LOT'].str[:2]\n",
"batchCodeTable = batchCodeTable.sort_values(by = 'VAX_LOT_PREFIX', ascending = True)\n", "batchCodeTable = batchCodeTable.sort_values(by = 'VAX_LOT_PREFIX', ascending = True)\n",
"\n",
"twoLetters = re.compile(r'^[a-zA-Z]{2}')\n", "twoLetters = re.compile(r'^[a-zA-Z]{2}')\n",
"batchCodeTable = batchCodeTable[batchCodeTable['VAX_LOT_PREFIX'].apply(lambda vax_lot_prefix: bool(twoLetters.match(vax_lot_prefix)))]\n", "batchCodeTable = filterColumnOfDataFrameWithRegexp(dataFrame = batchCodeTable, column = 'VAX_LOT_PREFIX', regexp = twoLetters)\n",
"batchCodeTable[batchCodeTable['VAX_LOT_PREFIX'].apply(lambda vax_lot_prefix: bool(twoLetters.match(vax_lot_prefix)))]\n",
"batchCodeTable = batchCodeTable[batchCodeTable['VAX_LOT_PREFIX'].isin(['EN', 'EP', 'ER', 'EW', 'FA', 'FC', 'FD', 'FE', 'FH'])]\n", "batchCodeTable = batchCodeTable[batchCodeTable['VAX_LOT_PREFIX'].isin(['EN', 'EP', 'ER', 'EW', 'FA', 'FC', 'FD', 'FE', 'FH'])]\n",
"batchCodeTable = batchCodeTable[batchCodeTable['ADRs'] > 400]\n", "batchCodeTable = batchCodeTable[batchCodeTable['ADRs'] > 400]\n",
"batchCodeTable" "batchCodeTable"
@@ -1212,8 +1215,7 @@
"\n", "\n",
"sns.set(rc = {'figure.figsize': (11.7, 8.27)})\n", "sns.set(rc = {'figure.figsize': (11.7, 8.27)})\n",
"sns.set_theme()\n", "sns.set_theme()\n",
"chart = sns.stripplot(x = \"VAX_LOT_PREFIX\", y = \"ADRs\", data = batchCodeTable)\n", "chart = sns.stripplot(x = \"VAX_LOT_PREFIX\", y = \"ADRs\", data = batchCodeTable)"
"# _ = chart.set_xticklabels(chart.get_xticklabels(), rotation = 90)"
] ]
}, },
{ {
@@ -1258,7 +1260,7 @@
"\n", "\n",
"batchCodeTable = createADRsByVAX_LOTTable(vaers, \"MODERNA\")\n", "batchCodeTable = createADRsByVAX_LOTTable(vaers, \"MODERNA\")\n",
"modernaBatchCodePrefix = re.compile(r'^[0-9]{3}[a-zA-Z]')\n", "modernaBatchCodePrefix = re.compile(r'^[0-9]{3}[a-zA-Z]')\n",
"batchCodeTable = batchCodeTable[batchCodeTable['VAX_LOT'].apply(lambda vax_lot: bool(modernaBatchCodePrefix.match(vax_lot)))]\n", "batchCodeTable = filterColumnOfDataFrameWithRegexp(dataFrame = batchCodeTable, column = 'VAX_LOT', regexp = modernaBatchCodePrefix)\n",
"batchCodeTable['CONCENTRATION'] = batchCodeTable['VAX_LOT'].str[3]\n", "batchCodeTable['CONCENTRATION'] = batchCodeTable['VAX_LOT'].str[3]\n",
"batchCodeTable = batchCodeTable.sort_values(by = 'CONCENTRATION', ascending = True)\n", "batchCodeTable = batchCodeTable.sort_values(by = 'CONCENTRATION', ascending = True)\n",
"batchCodeTable = batchCodeTable[batchCodeTable['ADRs'] > 400]\n", "batchCodeTable = batchCodeTable[batchCodeTable['ADRs'] > 400]\n",