From e30a3dcb4008431ab88f2a9e04c059789315061d Mon Sep 17 00:00:00 2001
From: Frank Knoll <Knoll_Frank@web.de>
Date: Thu, 11 Jul 2024 08:24:32 +0200
Subject: [PATCH] trying to increase free memory

---
 src/HowBadIsMyBatch.ipynb | 70 ++++++++++++---------------------------
 1 file changed, 22 insertions(+), 48 deletions(-)

diff --git a/src/HowBadIsMyBatch.ipynb b/src/HowBadIsMyBatch.ipynb
index 3cda82b3f45..20c4ab2166b 100644
--- a/src/HowBadIsMyBatch.ipynb
+++ b/src/HowBadIsMyBatch.ipynb
@@ -460,7 +460,8 @@
     "from SymptomsCausedByVaccines.PrrSeriesTransformer import PrrSeriesTransformer\n",
     "from SymptomsCausedByVaccines.ProportionalReportingRatiosPersister import saveProportionalReportingRatios\n",
     "import os\n",
-    "import pandas as pd"
+    "import pandas as pd\n",
+    "import gc"
    ]
   },
   {
@@ -471,7 +472,7 @@
    "outputs": [],
    "source": [
     "prrByVaccineAndSymptom = pd.read_csv(\n",
-    "    'data/prrByDrugAndSymptom-EudraVigilance-10.csv',\n",
+    "    'data/prrByDrugAndSymptom-EudraVigilance.csv',\n",
     "    index_col = 'DRUG')\n",
     "prrByVaccineAndSymptom"
    ]
@@ -487,50 +488,6 @@
     "prrByVaccineAndSymptom"
    ]
   },
-  {
-   "cell_type": "code",
-   "execution_count": null,
-   "id": "588aaa2b",
-   "metadata": {},
-   "outputs": [],
-   "source": [
-    "prrByVaccineBySymptom = PrrSeriesFactory.getPrrByVaccineBySymptom(prrByVaccineAndSymptom)\n",
-    "prrByVaccineBySymptom"
-   ]
-  },
-  {
-   "cell_type": "code",
-   "execution_count": null,
-   "id": "379d9730",
-   "metadata": {},
-   "outputs": [],
-   "source": [
-    "prrBySymptomByVaccine = PrrSeriesFactory.getPrrBySymptomByVaccine(prrByVaccineAndSymptom)\n",
-    "prrBySymptomByVaccine"
-   ]
-  },
-  {
-   "cell_type": "code",
-   "execution_count": null,
-   "id": "0cfd4c66",
-   "metadata": {},
-   "outputs": [],
-   "source": [
-    "prrByVaccineBySymptomWithoutZeroPrrs = PrrSeriesTransformer.filterByNonZeroPrrs(prrByVaccineBySymptom)\n",
-    "prrByVaccineBySymptomWithoutZeroPrrs"
-   ]
-  },
-  {
-   "cell_type": "code",
-   "execution_count": null,
-   "id": "86da9cb7",
-   "metadata": {},
-   "outputs": [],
-   "source": [
-    "prrBySymptomByVaccineWithHighPrrs = PrrSeriesTransformer.filterPrrs(prrBySymptomByVaccine, lambda prr: prr >= 2)\n",
-    "prrBySymptomByVaccineWithHighPrrs"
-   ]
-  },
   {
    "cell_type": "code",
    "execution_count": null,
@@ -548,9 +505,18 @@
    "metadata": {},
    "outputs": [],
    "source": [
+    "prrByVaccineBySymptom = PrrSeriesFactory.getPrrByVaccineBySymptom(prrByVaccineAndSymptom)\n",
+    "\n",
+    "prrByVaccineBySymptomWithoutZeroPrrs = PrrSeriesTransformer.filterByNonZeroPrrs(prrByVaccineBySymptom)\n",
+    "del prrByVaccineBySymptom\n",
+    "gc.collect()\n",
+    "\n",
     "saveProportionalReportingRatios(\n",
     "    prrByVaccineBySymptomWithoutZeroPrrs,\n",
-    "    directory = os.path.normpath(webAppBaseDir + '/data/ProportionalReportingRatios/symptoms'))"
+    "    directory = os.path.normpath(webAppBaseDir + '/data/ProportionalReportingRatios/symptoms'))\n",
+    "\n",
+    "del prrByVaccineBySymptomWithoutZeroPrrs\n",
+    "gc.collect()"
    ]
   },
   {
@@ -560,9 +526,17 @@
    "metadata": {},
    "outputs": [],
    "source": [
+    "prrBySymptomByVaccine = PrrSeriesFactory.getPrrBySymptomByVaccine(prrByVaccineAndSymptom)\n",
+    "prrBySymptomByVaccineWithHighPrrs = PrrSeriesTransformer.filterPrrs(prrBySymptomByVaccine, lambda prr: prr >= 2)\n",
+    "del prrBySymptomByVaccine\n",
+    "gc.collect()\n",
+    "\n",
     "saveProportionalReportingRatios(\n",
     "    prrBySymptomByVaccineWithHighPrrs,\n",
-    "    directory = os.path.normpath(webAppBaseDir + '/data/ProportionalReportingRatios/vaccines'))"
+    "    directory = os.path.normpath(webAppBaseDir + '/data/ProportionalReportingRatios/vaccines'))\n",
+    "\n",
+    "del prrBySymptomByVaccineWithHighPrrs\n",
+    "gc.collect()"
    ]
   },
   {