From 4daa446306b5289b0d3a9c1bc428b7923fac5d16 Mon Sep 17 00:00:00 2001
From: =?UTF-8?q?Rok=20Ro=C5=A1kar?= <rok.roskar@sdsc.ethz.ch>
Date: Mon, 23 Mar 2020 16:52:14 +0000
Subject: [PATCH] renku run papermill
notebooks/examples/openzh-covid-19-example.ipynb
runs/openzh-covid-19-example.run.ipynb -p save_figures True -p data_path
data/openzh-covid-19/ -p figures_path figures/
---
.gitattributes | 1 +
...72f47c3f4c05bc93dc7d98ccd52f_papermill.cwl | 109 +++
figures/switzerland-cases-by-canton.html | 35 +
figures/switzerland-deaths-by-canton.html | 35 +
runs/openzh-covid-19-example.run.ipynb | 745 ++++++++++++++++++
5 files changed, 925 insertions(+)
create mode 100644 .renku/workflow/c46d72f47c3f4c05bc93dc7d98ccd52f_papermill.cwl
create mode 100644 figures/switzerland-cases-by-canton.html
create mode 100644 figures/switzerland-deaths-by-canton.html
create mode 100644 runs/openzh-covid-19-example.run.ipynb
diff --git a/.gitattributes b/.gitattributes
index b072c56d..ace374be 100644
--- a/.gitattributes
+++ b/.gitattributes
@@ -240,4 +240,5 @@ data/covid-19-italy/dati-regioni-description.json filter=lfs diff=lfs merge=lfs
data/covid-19-italy/dati-andamento-nazionale-description.json filter=lfs diff=lfs merge=lfs -text
data/openzh-covid-19/COVID19_Fallzahlen_Kanton_SO_total.csv filter=lfs diff=lfs merge=lfs -text
data/ch-population-statistics/ch-population-by-age-canton.xls filter=lfs diff=lfs merge=lfs -text
+figures/** filter=lfs diff=lfs merge=lfs -text
figures/** !text !filter !merge !diff
diff --git a/.renku/workflow/c46d72f47c3f4c05bc93dc7d98ccd52f_papermill.cwl b/.renku/workflow/c46d72f47c3f4c05bc93dc7d98ccd52f_papermill.cwl
new file mode 100644
index 00000000..be56db17
--- /dev/null
+++ b/.renku/workflow/c46d72f47c3f4c05bc93dc7d98ccd52f_papermill.cwl
@@ -0,0 +1,109 @@
+arguments: []
+baseCommand:
+- papermill
+class: CommandLineTool
+cwlVersion: v1.0
+hints: []
+inputs:
+ input_1:
+ default:
+ class: File
+ path: ../../notebooks/examples/openzh-covid-19-example.ipynb
+ inputBinding:
+ position: 1
+ separate: true
+ shellQuote: true
+ streamable: false
+ type: File
+ input_2:
+ default: runs/openzh-covid-19-example.run.ipynb
+ inputBinding:
+ position: 2
+ separate: true
+ shellQuote: true
+ streamable: false
+ type: string
+ input_3:
+ default: save_figures
+ inputBinding:
+ position: 3
+ prefix: -p
+ separate: true
+ shellQuote: true
+ streamable: false
+ type: string
+ input_4:
+ default: 'True'
+ inputBinding:
+ position: 4
+ separate: true
+ shellQuote: true
+ streamable: false
+ type: string
+ input_5:
+ default: data_path
+ inputBinding:
+ position: 5
+ prefix: -p
+ separate: true
+ shellQuote: true
+ streamable: false
+ type: string
+ input_6:
+ default:
+ class: Directory
+ listing: []
+ path: ../../data/openzh-covid-19
+ inputBinding:
+ position: 6
+ separate: true
+ shellQuote: true
+ streamable: false
+ type: Directory
+ input_7:
+ default: figures_path
+ inputBinding:
+ position: 7
+ prefix: -p
+ separate: true
+ shellQuote: true
+ streamable: false
+ type: string
+ input_8:
+ default: figures
+ inputBinding:
+ position: 8
+ separate: true
+ shellQuote: true
+ streamable: false
+ type: string
+outputs:
+ output_0:
+ outputBinding:
+ glob: $(inputs.input_2)
+ streamable: false
+ type: File
+ output_1:
+ outputBinding:
+ glob: $(inputs.input_8)
+ streamable: false
+ type: Directory
+permanentFailCodes: []
+requirements:
+- class: InlineJavascriptRequirement
+- class: InitialWorkDirRequirement
+ listing:
+ - entry: '$({"listing": [], "class": "Directory"})'
+ entryname: runs
+ writable: true
+ - entry: '$({"listing": [], "class": "Directory"})'
+ entryname: figures
+ writable: true
+ - entry: $(inputs.input_1)
+ entryname: notebooks/examples/openzh-covid-19-example.ipynb
+ writable: false
+ - entry: $(inputs.input_6)
+ entryname: data/openzh-covid-19
+ writable: false
+successCodes: []
+temporaryFailCodes: []
diff --git a/figures/switzerland-cases-by-canton.html b/figures/switzerland-cases-by-canton.html
new file mode 100644
index 00000000..08477320
--- /dev/null
+++ b/figures/switzerland-cases-by-canton.html
@@ -0,0 +1,35 @@
+<!DOCTYPE html>
+<html>
+<head>
+ <style>
+ .error {
+ color: red;
+ }
+ </style>
+ <script type="text/javascript" src="https://cdn.jsdelivr.net/npm//vega@5"></script>
+ <script type="text/javascript" src="https://cdn.jsdelivr.net/npm//vega-lite@4.0.2"></script>
+ <script type="text/javascript" src="https://cdn.jsdelivr.net/npm//vega-embed@6"></script>
+</head>
+<body>
+ <div id="vis"></div>
+ <script>
+ (function(vegaEmbed) {
+ var spec = {"config": {"view": {"continuousWidth": 400, "continuousHeight": 300}, "title": {"anchor": "middle"}}, "hconcat": [{"mark": "line", "encoding": {"color": {"type": "nominal", "field": "abbreviation_canton_and_fl", "legend": {"title": "Canton"}}, "opacity": {"condition": {"value": 1, "selection": "selector001"}, "value": 0.2}, "tooltip": [{"type": "nominal", "field": "abbreviation_canton_and_fl", "title": "Canton"}, {"type": "quantitative", "field": "ncumul_conf", "title": "Cases"}, {"type": "temporal", "field": "date", "title": "Date"}], "x": {"type": "temporal", "field": "date", "title": "Date"}, "y": {"type": "quantitative", "field": "ncumul_conf", "scale": {"type": "linear"}, "title": "Cases"}}, "selection": {"selector001": {"type": "multi", "fields": ["abbreviation_canton_and_fl"], "bind": "legend"}}}, {"mark": "line", "encoding": {"color": {"type": "nominal", "field": "abbreviation_canton_and_fl", "legend": {"title": "Canton"}}, "opacity": {"condition": {"value": 1, "selection": "selector002"}, "value": 0.2}, "tooltip": [{"type": "nominal", "field": "abbreviation_canton_and_fl", "title": "Canton"}, {"type": "quantitative", "field": "ncumul_conf", "title": "Cases/10k"}, {"type": "temporal", "field": "date", "title": "Date"}], "x": {"type": "temporal", "field": "date", "title": "Date"}, "y": {"type": "quantitative", "field": "ncumul_conf_10k", "scale": {"type": "linear"}, "title": "Cases per 10k population"}}, "selection": {"selector002": {"type": "multi", "fields": ["abbreviation_canton_and_fl"], "bind": "legend"}}}], "data": {"name": "data-5300522211231d973c6bf799f0ccd110"}, "title": "Covid-19 cases in Switzerland by Canton", "$schema": "https://vega.github.io/schema/vega-lite/v4.0.2.json", "datasets": {"data-5300522211231d973c6bf799f0ccd110": [{"date": "2020-02-28T00:00:00", "time": null, "abbreviation_canton_and_fl": "VS", "ncumul_tested": null, "ncumul_conf": 1.0, "ncumul_hosp": null, "ncumul_ICU": null, "ncumul_vent": null, "ncumul_released": 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"ncumul_ICU_intub": null, "TotalPosTests1": null, "TotalCured": null, "ncumul_conf_10k": 1.3514443561556415, "ncumul_deceased_10k": 0.01251337366810779}, {"date": "2020-03-12T00:00:00", "time": null, "abbreviation_canton_and_fl": "VD", "ncumul_tested": null, "ncumul_conf": 156.0, "ncumul_hosp": 43.0, "ncumul_ICU": 8.0, "ncumul_vent": null, "ncumul_released": null, "ncumul_deceased": 1.0, "source": "https://www.vd.ch/toutes-les-actualites/hotline-et-informations-sur-le-coronavirus/", "ncumul_ICF": null, "ncumul_ICU_intub": null, "TotalPosTests1": null, "TotalCured": null, "ncumul_conf_10k": 1.9520862922248154, "ncumul_deceased_10k": 0.01251337366810779}, {"date": "2020-03-13T00:00:00", "time": null, "abbreviation_canton_and_fl": "VD", "ncumul_tested": null, "ncumul_conf": 204.0, "ncumul_hosp": 52.0, "ncumul_ICU": 10.0, "ncumul_vent": null, "ncumul_released": 5.0, "ncumul_deceased": 2.0, "source": "https://www.vd.ch/toutes-les-actualites/hotline-et-informations-sur-le-coronavirus/", "ncumul_ICF": null, "ncumul_ICU_intub": null, "TotalPosTests1": null, "TotalCured": null, "ncumul_conf_10k": 2.552728228293989, "ncumul_deceased_10k": 0.02502674733621558}, {"date": "2020-03-14T00:00:00", "time": null, "abbreviation_canton_and_fl": "VD", "ncumul_tested": null, "ncumul_conf": 350.0, "ncumul_hosp": 43.0, "ncumul_ICU": 14.0, "ncumul_vent": null, "ncumul_released": 5.0, "ncumul_deceased": 3.0, "source": "https://www.vd.ch/toutes-les-actualites/hotline-et-informations-sur-le-coronavirus/", "ncumul_ICF": null, "ncumul_ICU_intub": null, "TotalPosTests1": null, "TotalCured": null, "ncumul_conf_10k": 4.379680783837727, "ncumul_deceased_10k": 0.03754012100432337}, {"date": "2020-03-15T00:00:00", "time": null, "abbreviation_canton_and_fl": "VD", "ncumul_tested": null, "ncumul_conf": 406.0, "ncumul_hosp": 62.0, "ncumul_ICU": 19.0, "ncumul_vent": null, "ncumul_released": 5.0, "ncumul_deceased": 4.0, "source": "https://www.vd.ch/toutes-les-actualites/hotline-et-informations-sur-le-coronavirus/", "ncumul_ICF": null, "ncumul_ICU_intub": null, "TotalPosTests1": null, "TotalCured": null, "ncumul_conf_10k": 5.080429709251763, "ncumul_deceased_10k": 0.05005349467243116}, {"date": "2020-03-16T00:00:00", "time": null, "abbreviation_canton_and_fl": "VD", "ncumul_tested": null, "ncumul_conf": 508.0, "ncumul_hosp": 66.0, "ncumul_ICU": 27.0, "ncumul_vent": null, "ncumul_released": 5.0, "ncumul_deceased": 5.0, "source": "https://www.vd.ch/toutes-les-actualites/hotline-et-informations-sur-le-coronavirus/", "ncumul_ICF": null, "ncumul_ICU_intub": null, "TotalPosTests1": null, "TotalCured": null, "ncumul_conf_10k": 6.356793823398758, "ncumul_deceased_10k": 0.06256686834053896}, {"date": "2020-03-17T00:00:00", "time": null, "abbreviation_canton_and_fl": "VD", "ncumul_tested": null, "ncumul_conf": 608.0, "ncumul_hosp": 95.0, "ncumul_ICU": 35.0, "ncumul_vent": null, "ncumul_released": 9.0, "ncumul_deceased": 5.0, "source": "https://www.vd.ch/toutes-les-actualites/hotline-et-informations-sur-le-coronavirus/", "ncumul_ICF": null, "ncumul_ICU_intub": null, "TotalPosTests1": null, "TotalCured": null, "ncumul_conf_10k": 7.608131190209536, "ncumul_deceased_10k": 0.06256686834053896}, {"date": "2020-03-18T00:00:00", "time": null, "abbreviation_canton_and_fl": "VD", "ncumul_tested": null, "ncumul_conf": 796.0, "ncumul_hosp": 128.0, "ncumul_ICU": 34.0, "ncumul_vent": null, "ncumul_released": 16.0, "ncumul_deceased": 5.0, "source": "https://www.vd.ch/toutes-les-actualites/hotline-et-informations-sur-le-coronavirus/", "ncumul_ICF": null, "ncumul_ICU_intub": null, "TotalPosTests1": null, "TotalCured": null, "ncumul_conf_10k": 9.960645439813803, "ncumul_deceased_10k": 0.06256686834053896}, {"date": "2020-03-19T00:00:00", "time": null, "abbreviation_canton_and_fl": "VD", "ncumul_tested": null, "ncumul_conf": 1212.0, "ncumul_hosp": 140.0, "ncumul_ICU": 32.0, "ncumul_vent": null, "ncumul_released": 52.0, "ncumul_deceased": 7.0, "source": "https://www.vd.ch/toutes-les-actualites/hotline-et-informations-sur-le-coronavirus/", "ncumul_ICF": null, "ncumul_ICU_intub": null, "TotalPosTests1": null, "TotalCured": null, "ncumul_conf_10k": 15.166208885746641, "ncumul_deceased_10k": 0.08759361567675453}, {"date": "2020-03-20T00:00:00", "time": null, "abbreviation_canton_and_fl": "VD", "ncumul_tested": null, "ncumul_conf": 1432.0, "ncumul_hosp": 152.0, "ncumul_ICU": 30.0, "ncumul_vent": null, "ncumul_released": 62.0, "ncumul_deceased": 12.0, "source": "https://www.vd.ch/toutes-les-actualites/hotline-et-informations-sur-le-coronavirus/", "ncumul_ICF": null, "ncumul_ICU_intub": null, "TotalPosTests1": null, "TotalCured": null, "ncumul_conf_10k": 17.919151092730356, "ncumul_deceased_10k": 0.15016048401729348}, {"date": "2020-03-21T00:00:00", "time": null, "abbreviation_canton_and_fl": "VD", "ncumul_tested": null, "ncumul_conf": 1676.0, "ncumul_hosp": 175.0, "ncumul_ICU": 23.0, "ncumul_vent": null, "ncumul_released": 70.0, "ncumul_deceased": 15.0, "source": "https://www.vd.ch/toutes-les-actualites/hotline-et-informations-sur-le-coronavirus/", "ncumul_ICF": null, "ncumul_ICU_intub": null, "TotalPosTests1": null, "TotalCured": null, "ncumul_conf_10k": 20.972414267748654, "ncumul_deceased_10k": 0.18770060502161687}, {"date": "2020-03-21T00:00:00", "time": null, "abbreviation_canton_and_fl": "AR", "ncumul_tested": null, "ncumul_conf": null, "ncumul_hosp": null, "ncumul_ICU": null, "ncumul_vent": null, "ncumul_released": null, "ncumul_deceased": 1.0, "source": "https://www.ar.ch/schnellzugriff/medienmitteilungen-der-kantonalen-verwaltung/detail/news/coronavirus-erster-todesfall-in-appenzell-ausserrhoden/?tx_news_pi1%5Bcontroller%5D=News&tx_news_pi1%5Baction%5D=detail&cHash=a88f209df29c38474f9c5f9e1c5dd53f", "ncumul_ICF": null, "ncumul_ICU_intub": null, "TotalPosTests1": null, "TotalCured": null, "ncumul_conf_10k": null, "ncumul_deceased_10k": 0.6193868070610096}]}};
+ var embedOpt = {"mode": "vega-lite"};
+
+ function showError(el, error){
+ el.innerHTML = ('<div class="error" style="color:red;">'
+ + '<p>JavaScript Error: ' + error.message + '</p>'
+ + "<p>This usually means there's a typo in your chart specification. "
+ + "See the javascript console for the full traceback.</p>"
+ + '</div>');
+ throw error;
+ }
+ const el = document.getElementById('vis');
+ vegaEmbed("#vis", spec, embedOpt)
+ .catch(error => showError(el, error));
+ })(vegaEmbed);
+
+ </script>
+</body>
+</html>
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diff --git a/runs/openzh-covid-19-example.run.ipynb b/runs/openzh-covid-19-example.run.ipynb
new file mode 100644
index 00000000..bce27c90
--- /dev/null
+++ b/runs/openzh-covid-19-example.run.ipynb
@@ -0,0 +1,745 @@
+{
+ "cells": [
+ {
+ "cell_type": "code",
+ "execution_count": 1,
+ "metadata": {
+ "papermill": {
+ "duration": 0.522649,
+ "end_time": "2020-03-23T16:51:47.152960",
+ "exception": false,
+ "start_time": "2020-03-23T16:51:46.630311",
+ "status": "completed"
+ },
+ "tags": []
+ },
+ "outputs": [],
+ "source": [
+ "from pathlib import Path\n",
+ "\n",
+ "import altair as alt\n",
+ "import pandas as pd\n",
+ "from IPython.display import display, HTML"
+ ]
+ },
+ {
+ "cell_type": "code",
+ "execution_count": 2,
+ "metadata": {
+ "papermill": {
+ "duration": 0.018904,
+ "end_time": "2020-03-23T16:51:47.189951",
+ "exception": false,
+ "start_time": "2020-03-23T16:51:47.171047",
+ "status": "completed"
+ },
+ "tags": [
+ "parameters"
+ ]
+ },
+ "outputs": [],
+ "source": [
+ "save_figures = False\n",
+ "data_path = '../../data/openzh-covid-19'\n",
+ "figures_path = '../../figures'"
+ ]
+ },
+ {
+ "cell_type": "code",
+ "execution_count": 3,
+ "metadata": {
+ "papermill": {
+ "duration": 0.021076,
+ "end_time": "2020-03-23T16:51:47.219677",
+ "exception": false,
+ "start_time": "2020-03-23T16:51:47.198601",
+ "status": "completed"
+ },
+ "tags": [
+ "injected-parameters"
+ ]
+ },
+ "outputs": [],
+ "source": [
+ "# Parameters\n",
+ "save_figures = True\n",
+ "data_path = \"data/openzh-covid-19/\"\n",
+ "figures_path = \"figures/\"\n"
+ ]
+ },
+ {
+ "cell_type": "code",
+ "execution_count": 4,
+ "metadata": {
+ "papermill": {
+ "duration": 0.021754,
+ "end_time": "2020-03-23T16:51:47.250042",
+ "exception": false,
+ "start_time": "2020-03-23T16:51:47.228288",
+ "status": "completed"
+ },
+ "tags": []
+ },
+ "outputs": [],
+ "source": [
+ "html_credits=HTML('''\n",
+ "<p style=\"font-size: smaller\">Data Sources: \n",
+ " <a href=\"https://github.com/openZH/covid_19\">OpenData Zuerich</a>,\n",
+ " <a href=\"https://www.bfs.admin.ch\">Federal Statistical Office</a>\n",
+ "<br>\n",
+ "Analysis:\n",
+ " <a href=\"https://renkulab.io/projects/covid-19/covid-19-public-data\">Covid-19 Public Data Collaboration Project</a>\n",
+ "</p>''')"
+ ]
+ },
+ {
+ "cell_type": "markdown",
+ "metadata": {
+ "papermill": {
+ "duration": 0.007007,
+ "end_time": "2020-03-23T16:51:47.266447",
+ "exception": false,
+ "start_time": "2020-03-23T16:51:47.259440",
+ "status": "completed"
+ },
+ "tags": []
+ },
+ "source": [
+ "## Read in the data\n",
+ "\n",
+ "We have two datasets for Switzerland - the COVID-19 dataset from https://github.com/openZH/covid_19 and the population statistics by age and canton. We can read both of these in to dataframes:"
+ ]
+ },
+ {
+ "cell_type": "code",
+ "execution_count": 5,
+ "metadata": {
+ "papermill": {
+ "duration": 0.127937,
+ "end_time": "2020-03-23T16:51:47.401412",
+ "exception": false,
+ "start_time": "2020-03-23T16:51:47.273475",
+ "status": "completed"
+ },
+ "tags": []
+ },
+ "outputs": [],
+ "source": [
+ "# read in cantonal data and produce one dataframe\n",
+ "df_list = []\n",
+ "\n",
+ "for f in Path(data_path).glob('COVID19_Fallzahlen_Kanton_*total.csv'):\n",
+ " df_list.append(pd.read_csv(f))\n",
+ "\n",
+ "df = pd.concat(df_list)\n",
+ "\n",
+ "df['date'] = pd.to_datetime(df['date'], dayfirst=True)"
+ ]
+ },
+ {
+ "cell_type": "code",
+ "execution_count": 6,
+ "metadata": {
+ "papermill": {
+ "duration": 25.447471,
+ "end_time": "2020-03-23T16:52:12.866665",
+ "exception": false,
+ "start_time": "2020-03-23T16:51:47.419194",
+ "status": "completed"
+ },
+ "tags": []
+ },
+ "outputs": [],
+ "source": [
+ "# read in population data\n",
+ "df_pop = pd.read_excel(\n",
+ " Path(data_path) / '../ch-population-statistics/ch-population-by-age-canton.xls', \n",
+ " header=1, \n",
+ " skipfooter=5\n",
+ ")\n",
+ "df_pop = df_pop.where(\n",
+ " df_pop.Region.str.startswith('-')\n",
+ ").dropna().sort_values('Region').reset_index(drop=True)\n",
+ "\n",
+ "# match the cantons in the two datasets\n",
+ "df_pop['abbreviation_canton_and_fl'] = ['AG', 'AI', 'AR', 'BL', 'BS', 'BE', 'FR', 'GE', 'GL', 'GR', 'JU', 'LU', 'NE', 'NW', 'OW', 'SH', 'SZ', 'SO', 'SG', 'TG', 'TI', 'UR', 'VS', 'VD', 'ZG', 'ZH']\n",
+ "\n",
+ "pop_d = df_pop[['abbreviation_canton_and_fl', 'Total']].set_index('abbreviation_canton_and_fl').to_dict()\n",
+ "\n",
+ "\n",
+ "# calculate cases and deaths per 10k\n",
+ "\n",
+ "for x in ['conf', 'deceased']:\n",
+ " df[f'ncumul_{x}_10k'] = df.apply(\n",
+ " lambda row: row[f'ncumul_{x}']/pop_d['Total'][row.abbreviation_canton_and_fl]*10000, axis=1\n",
+ " )"
+ ]
+ },
+ {
+ "cell_type": "code",
+ "execution_count": 7,
+ "metadata": {
+ "papermill": {
+ "duration": 0.069246,
+ "end_time": "2020-03-23T16:52:12.956070",
+ "exception": false,
+ "start_time": "2020-03-23T16:52:12.886824",
+ "status": "completed"
+ },
+ "tags": []
+ },
+ "outputs": [
+ {
+ "data": {
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+ " <thead>\n",
+ " <tr style=\"text-align: right;\">\n",
+ " <th></th>\n",
+ " <th>date</th>\n",
+ " <th>time</th>\n",
+ " <th>abbreviation_canton_and_fl</th>\n",
+ " <th>ncumul_tested</th>\n",
+ " <th>ncumul_conf</th>\n",
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+ " <th>ncumul_released</th>\n",
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+ " <th>ncumul_ICF</th>\n",
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+ " <th>TotalCured</th>\n",
+ " <th>ncumul_conf_10k</th>\n",
+ " <th>ncumul_deceased_10k</th>\n",
+ " </tr>\n",
+ " </thead>\n",
+ " <tbody>\n",
+ " <tr>\n",
+ " <th>0</th>\n",
+ " <td>2020-02-28</td>\n",
+ " <td>NaN</td>\n",
+ " <td>VS</td>\n",
+ " <td>NaN</td>\n",
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+ " <td>NaN</td>\n",
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+ " <td>NaN</td>\n",
+ " <td>https://vs.ch/documents/529400/6767345/2020+02...</td>\n",
+ " <td>NaN</td>\n",
+ " <td>NaN</td>\n",
+ " <td>NaN</td>\n",
+ " <td>NaN</td>\n",
+ " <td>0.029074</td>\n",
+ " <td>NaN</td>\n",
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+ " <tr>\n",
+ " <th>1</th>\n",
+ " <td>2020-03-03</td>\n",
+ " <td>NaN</td>\n",
+ " <td>VS</td>\n",
+ " <td>NaN</td>\n",
+ " <td>2.0</td>\n",
+ " <td>NaN</td>\n",
+ " <td>NaN</td>\n",
+ " <td>NaN</td>\n",
+ " <td>NaN</td>\n",
+ " <td>NaN</td>\n",
+ " <td>https://vs.ch/documents/529400/6789273/2020+03...</td>\n",
+ " <td>NaN</td>\n",
+ " <td>NaN</td>\n",
+ " <td>NaN</td>\n",
+ " <td>NaN</td>\n",
+ " <td>0.058147</td>\n",
+ " <td>NaN</td>\n",
+ " </tr>\n",
+ " <tr>\n",
+ " <th>2</th>\n",
+ " <td>2020-03-05</td>\n",
+ " <td>NaN</td>\n",
+ " <td>VS</td>\n",
+ " <td>NaN</td>\n",
+ " <td>3.0</td>\n",
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+ " <td>NaN</td>\n",
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+ " <td>NaN</td>\n",
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+ " <td>NaN</td>\n",
+ " </tr>\n",
+ " <tr>\n",
+ " <th>3</th>\n",
+ " <td>2020-03-06</td>\n",
+ " <td>NaN</td>\n",
+ " <td>VS</td>\n",
+ " <td>NaN</td>\n",
+ " <td>5.0</td>\n",
+ " <td>NaN</td>\n",
+ " <td>NaN</td>\n",
+ " <td>NaN</td>\n",
+ " <td>NaN</td>\n",
+ " <td>NaN</td>\n",
+ " <td>https://www.vs.ch/de/web/coronavirus/info?p_p_...</td>\n",
+ " <td>NaN</td>\n",
+ " <td>NaN</td>\n",
+ " <td>NaN</td>\n",
+ " <td>NaN</td>\n",
+ " <td>0.145368</td>\n",
+ " <td>NaN</td>\n",
+ " </tr>\n",
+ " <tr>\n",
+ " <th>4</th>\n",
+ " <td>2020-03-08</td>\n",
+ " <td>NaN</td>\n",
+ " <td>VS</td>\n",
+ " <td>NaN</td>\n",
+ " <td>7.0</td>\n",
+ " <td>NaN</td>\n",
+ " <td>NaN</td>\n",
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+ " <td>NaN</td>\n",
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+ " </tbody>\n",
+ "</table>\n",
+ "</div>"
+ ],
+ "text/plain": [
+ " date time abbreviation_canton_and_fl ncumul_tested ncumul_conf \\\n",
+ "0 2020-02-28 NaN VS NaN 1.0 \n",
+ "1 2020-03-03 NaN VS NaN 2.0 \n",
+ "2 2020-03-05 NaN VS NaN 3.0 \n",
+ "3 2020-03-06 NaN VS NaN 5.0 \n",
+ "4 2020-03-08 NaN VS NaN 7.0 \n",
+ "\n",
+ " ncumul_hosp ncumul_ICU ncumul_vent ncumul_released ncumul_deceased \\\n",
+ "0 NaN NaN NaN NaN NaN \n",
+ "1 NaN NaN NaN NaN NaN \n",
+ "2 NaN NaN NaN NaN NaN \n",
+ "3 NaN NaN NaN NaN NaN \n",
+ "4 NaN NaN NaN NaN NaN \n",
+ "\n",
+ " source ncumul_ICF \\\n",
+ "0 https://vs.ch/documents/529400/6767345/2020+02... NaN \n",
+ "1 https://vs.ch/documents/529400/6789273/2020+03... NaN \n",
+ "2 https://www.vs.ch/de/web/coronavirus/info?p_p_... NaN \n",
+ "3 https://www.vs.ch/de/web/coronavirus/info?p_p_... NaN \n",
+ "4 https://www.vs.ch/de/web/coronavirus/info?p_p_... NaN \n",
+ "\n",
+ " ncumul_ICU_intub TotalPosTests1 TotalCured ncumul_conf_10k \\\n",
+ "0 NaN NaN NaN 0.029074 \n",
+ "1 NaN NaN NaN 0.058147 \n",
+ "2 NaN NaN NaN 0.087221 \n",
+ "3 NaN NaN NaN 0.145368 \n",
+ "4 NaN NaN NaN 0.203515 \n",
+ "\n",
+ " ncumul_deceased_10k \n",
+ "0 NaN \n",
+ "1 NaN \n",
+ "2 NaN \n",
+ "3 NaN \n",
+ "4 NaN "
+ ]
+ },
+ "execution_count": 7,
+ "metadata": {},
+ "output_type": "execute_result"
+ }
+ ],
+ "source": [
+ "# display the dataframe\n",
+ "df.head()"
+ ]
+ },
+ {
+ "cell_type": "markdown",
+ "metadata": {
+ "papermill": {
+ "duration": 0.009265,
+ "end_time": "2020-03-23T16:52:12.980739",
+ "exception": false,
+ "start_time": "2020-03-23T16:52:12.971474",
+ "status": "completed"
+ },
+ "tags": []
+ },
+ "source": [
+ "## Plot the available data\n",
+ "\n",
+ "Below we make plots of total cases, total cases per 10k population and total deaths. "
+ ]
+ },
+ {
+ "cell_type": "code",
+ "execution_count": 8,
+ "metadata": {
+ "papermill": {
+ "duration": 0.05057,
+ "end_time": "2020-03-23T16:52:13.046053",
+ "exception": false,
+ "start_time": "2020-03-23T16:52:12.995483",
+ "status": "completed"
+ },
+ "tags": []
+ },
+ "outputs": [],
+ "source": [
+ "def generate_canton_chart(column, title, tooltip_title):\n",
+ " \"\"\"Produce a canton chart given a column name\"\"\"\n",
+ " selection = alt.selection_multi(fields=['abbreviation_canton_and_fl'], bind='legend')\n",
+ " chart = base.mark_line().encode(\n",
+ " alt.X('date', title='Date'), \n",
+ " alt.Y(column, \n",
+ " title=title, scale=alt.Scale(type='linear')),\n",
+ " color=alt.Color('abbreviation_canton_and_fl', legend=alt.Legend(title=\"Canton\")),\n",
+ " tooltip=[alt.Tooltip('abbreviation_canton_and_fl',title='Canton'),\n",
+ " alt.Tooltip('ncumul_conf',title=tooltip_title),\n",
+ " alt.Tooltip('date',title='Date')],\n",
+ " opacity=alt.condition(selection, alt.value(1), alt.value(0.2))\n",
+ " ).add_selection(\n",
+ " selection\n",
+ " )\n",
+ " return chart"
+ ]
+ },
+ {
+ "cell_type": "markdown",
+ "metadata": {
+ "papermill": {
+ "duration": 0.009824,
+ "end_time": "2020-03-23T16:52:13.070815",
+ "exception": false,
+ "start_time": "2020-03-23T16:52:13.060991",
+ "status": "completed"
+ },
+ "tags": []
+ },
+ "source": [
+ "### Total cases"
+ ]
+ },
+ {
+ "cell_type": "code",
+ "execution_count": 9,
+ "metadata": {
+ "papermill": {
+ "duration": 0.238869,
+ "end_time": "2020-03-23T16:52:13.318110",
+ "exception": false,
+ "start_time": "2020-03-23T16:52:13.079241",
+ "status": "completed"
+ },
+ "tags": []
+ },
+ "outputs": [
+ {
+ "data": {
+ "text/html": [
+ "\n",
+ "<div id=\"altair-viz-29393211e316498191e3c09a511c2c4f\"></div>\n",
+ "<script type=\"text/javascript\">\n",
+ " (function(spec, embedOpt){\n",
+ " const outputDiv = document.getElementById(\"altair-viz-29393211e316498191e3c09a511c2c4f\");\n",
+ " const paths = {\n",
+ " \"vega\": \"https://cdn.jsdelivr.net/npm//vega@5?noext\",\n",
+ " \"vega-lib\": \"https://cdn.jsdelivr.net/npm//vega-lib?noext\",\n",
+ " \"vega-lite\": \"https://cdn.jsdelivr.net/npm//vega-lite@4.0.2?noext\",\n",
+ " \"vega-embed\": \"https://cdn.jsdelivr.net/npm//vega-embed@6?noext\",\n",
+ " };\n",
+ "\n",
+ " function loadScript(lib) {\n",
+ " return new Promise(function(resolve, reject) {\n",
+ " var s = document.createElement('script');\n",
+ " s.src = paths[lib];\n",
+ " s.async = true;\n",
+ " s.onload = () => resolve(paths[lib]);\n",
+ " s.onerror = () => reject(`Error loading script: ${paths[lib]}`);\n",
+ " document.getElementsByTagName(\"head\")[0].appendChild(s);\n",
+ " });\n",
+ " }\n",
+ "\n",
+ " function showError(err) {\n",
+ " outputDiv.innerHTML = `<div class=\"error\" style=\"color:red;\">${err}</div>`;\n",
+ " throw err;\n",
+ " }\n",
+ "\n",
+ " function displayChart(vegaEmbed) {\n",
+ " vegaEmbed(outputDiv, spec, embedOpt)\n",
+ " .catch(err => showError(`Javascript Error: ${err.message}<br>This usually means there's a typo in your chart specification. See the javascript console for the full traceback.`));\n",
+ " }\n",
+ "\n",
+ " if(typeof define === \"function\" && define.amd) {\n",
+ " requirejs.config({paths});\n",
+ " require([\"vega-embed\"], displayChart, err => showError(`Error loading script: ${err.message}`));\n",
+ " } else if (typeof vegaEmbed === \"function\") {\n",
+ " displayChart(vegaEmbed);\n",
+ " } else {\n",
+ " loadScript(\"vega\")\n",
+ " .then(() => loadScript(\"vega-lite\"))\n",
+ " .then(() => loadScript(\"vega-embed\"))\n",
+ " .catch(showError)\n",
+ " .then(() => displayChart(vegaEmbed));\n",
+ " }\n",
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\"https://www.vs.ch/de/web/coronavirus/info?p_p_id=com_liferay_asset_publisher_web_portlet_AssetPublisherPortlet_INSTANCE_1rjMHS5sCcaN&p_p_lifecycle=0&p_p_state=normal&p_p_mode=view&_com_liferay_asset_publisher_web_portlet_AssetPublisherPortlet_INSTANCE_1rjMHS5sCcaN_delta=5&p_r_p_resetCur=false&_com_liferay_asset_publisher_web_portlet_AssetPublisherPortlet_INSTANCE_1rjMHS5sCcaN_cur=2#collapse6927494\", \"ncumul_ICF\": null, \"ncumul_ICU_intub\": null, \"TotalPosTests1\": null, \"TotalCured\": null, \"ncumul_conf_10k\": 2.7619892137052813, \"ncumul_deceased_10k\": 0.08722071201174572}, {\"date\": \"2020-03-19T00:00:00\", \"time\": null, \"abbreviation_canton_and_fl\": \"VS\", \"ncumul_tested\": null, \"ncumul_conf\": 232.0, \"ncumul_hosp\": null, \"ncumul_ICU\": null, \"ncumul_vent\": null, \"ncumul_released\": null, \"ncumul_deceased\": 4.0, \"source\": \"https://www.vs.ch/de/web/coronavirus#collapse6955818\", \"ncumul_ICF\": null, \"ncumul_ICU_intub\": null, \"TotalPosTests1\": null, \"TotalCured\": null, \"ncumul_conf_10k\": 6.745068395575003, \"ncumul_deceased_10k\": 0.11629428268232764}, {\"date\": \"2020-03-20T00:00:00\", \"time\": null, \"abbreviation_canton_and_fl\": \"VS\", \"ncumul_tested\": null, \"ncumul_conf\": 282.0, \"ncumul_hosp\": null, \"ncumul_ICU\": null, \"ncumul_vent\": null, \"ncumul_released\": null, \"ncumul_deceased\": 5.0, \"source\": \"https://www.vs.ch/de/web/coronavirus\", \"ncumul_ICF\": null, \"ncumul_ICU_intub\": null, \"TotalPosTests1\": null, \"TotalCured\": null, \"ncumul_conf_10k\": 8.198746929104098, \"ncumul_deceased_10k\": 0.14536785335290953}, {\"date\": \"2020-03-21T00:00:00\", \"time\": null, \"abbreviation_canton_and_fl\": \"VS\", \"ncumul_tested\": null, \"ncumul_conf\": 359.0, \"ncumul_hosp\": null, \"ncumul_ICU\": null, \"ncumul_vent\": null, \"ncumul_released\": null, \"ncumul_deceased\": 9.0, \"source\": \"https://www.vs.ch/de/web/coronavirus\", \"ncumul_ICF\": null, \"ncumul_ICU_intub\": null, \"TotalPosTests1\": 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+ "</script>"
+ ],
+ "text/plain": [
+ "alt.HConcatChart(...)"
+ ]
+ },
+ "metadata": {},
+ "output_type": "display_data"
+ },
+ {
+ "data": {
+ "text/html": [
+ "\n",
+ "<p style=\"font-size: smaller\">Data Sources: \n",
+ " <a href=\"https://github.com/openZH/covid_19\">OpenData Zuerich</a>,\n",
+ " <a href=\"https://www.bfs.admin.ch\">Federal Statistical Office</a>\n",
+ "<br>\n",
+ "Analysis:\n",
+ " <a href=\"https://renkulab.io/projects/covid-19/covid-19-public-data\">Covid-19 Public Data Collaboration Project</a>\n",
+ "</p>"
+ ],
+ "text/plain": [
+ "<IPython.core.display.HTML object>"
+ ]
+ },
+ "metadata": {},
+ "output_type": "display_data"
+ }
+ ],
+ "source": [
+ "base = alt.Chart(df.where(df.ncumul_conf>0).dropna(subset=['abbreviation_canton_and_fl']))\n",
+ "base.configure_header(titleFontSize=25)\n",
+ "base.configure_axis(labelFontSize=15, titleFontSize=15)\n",
+ "\n",
+ "cumul = generate_canton_chart('ncumul_conf', 'Cases', 'Cases')\n",
+ "cumul_10k = generate_canton_chart('ncumul_conf_10k', 'Cases per 10k population', 'Cases/10k')\n",
+ "\n",
+ "chart = alt.hconcat(\n",
+ " cumul, cumul_10k, title='Covid-19 cases in Switzerland by Canton'\n",
+ ").configure_title(\n",
+ " anchor='middle'\n",
+ ")\n",
+ "\n",
+ "display(chart)\n",
+ "if save_figures:\n",
+ " chart.save(str(Path(figures_path) / 'switzerland-cases-by-canton.html'))\n",
+ " \n",
+ "display(html_credits)"
+ ]
+ },
+ {
+ "cell_type": "markdown",
+ "metadata": {
+ "papermill": {
+ "duration": 0.010892,
+ "end_time": "2020-03-23T16:52:13.352516",
+ "exception": false,
+ "start_time": "2020-03-23T16:52:13.341624",
+ "status": "completed"
+ },
+ "tags": []
+ },
+ "source": [
+ "### Deaths"
+ ]
+ },
+ {
+ "cell_type": "code",
+ "execution_count": 10,
+ "metadata": {
+ "papermill": {
+ "duration": 0.169935,
+ "end_time": "2020-03-23T16:52:13.533313",
+ "exception": false,
+ "start_time": "2020-03-23T16:52:13.363378",
+ "status": "completed"
+ },
+ "tags": []
+ },
+ "outputs": [
+ {
+ "data": {
+ "text/html": [
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+ "<div id=\"altair-viz-003d0382f26d4cd59f9b281c88bf0d8d\"></div>\n",
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+ " \"vega-embed\": \"https://cdn.jsdelivr.net/npm//vega-embed@6?noext\",\n",
+ " };\n",
+ "\n",
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+ "\n",
+ " function displayChart(vegaEmbed) {\n",
+ " vegaEmbed(outputDiv, spec, embedOpt)\n",
+ " .catch(err => showError(`Javascript Error: ${err.message}<br>This usually means there's a typo in your chart specification. See the javascript console for the full traceback.`));\n",
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+ "\n",
+ " if(typeof define === \"function\" && define.amd) {\n",
+ " requirejs.config({paths});\n",
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+ " loadScript(\"vega\")\n",
+ " .then(() => loadScript(\"vega-lite\"))\n",
+ " .then(() => loadScript(\"vega-embed\"))\n",
+ " .catch(showError)\n",
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\"https://www.vd.ch/toutes-les-actualites/hotline-et-informations-sur-le-coronavirus/\", \"ncumul_ICF\": null, \"ncumul_ICU_intub\": null, \"TotalPosTests1\": null, \"TotalCured\": null, \"ncumul_conf_10k\": 0.2878075943664792, \"ncumul_deceased_10k\": 0.01251337366810779}, {\"date\": \"2020-03-07T00:00:00\", \"time\": null, \"abbreviation_canton_and_fl\": \"VD\", \"ncumul_tested\": null, \"ncumul_conf\": 30.0, \"ncumul_hosp\": 16.0, \"ncumul_ICU\": 4.0, \"ncumul_vent\": null, \"ncumul_released\": null, \"ncumul_deceased\": 1.0, \"source\": \"https://www.vd.ch/toutes-les-actualites/hotline-et-informations-sur-le-coronavirus/\", \"ncumul_ICF\": null, \"ncumul_ICU_intub\": null, \"TotalPosTests1\": null, \"TotalCured\": null, \"ncumul_conf_10k\": 0.37540121004323374, \"ncumul_deceased_10k\": 0.01251337366810779}, {\"date\": \"2020-03-08T00:00:00\", \"time\": null, \"abbreviation_canton_and_fl\": \"VD\", \"ncumul_tested\": null, \"ncumul_conf\": 40.0, \"ncumul_hosp\": 22.0, 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35.0, \"ncumul_vent\": null, \"ncumul_released\": 9.0, \"ncumul_deceased\": 5.0, \"source\": \"https://www.vd.ch/toutes-les-actualites/hotline-et-informations-sur-le-coronavirus/\", \"ncumul_ICF\": null, \"ncumul_ICU_intub\": null, \"TotalPosTests1\": null, \"TotalCured\": null, \"ncumul_conf_10k\": 7.608131190209536, \"ncumul_deceased_10k\": 0.06256686834053896}, {\"date\": \"2020-03-18T00:00:00\", \"time\": null, \"abbreviation_canton_and_fl\": \"VD\", \"ncumul_tested\": null, \"ncumul_conf\": 796.0, \"ncumul_hosp\": 128.0, \"ncumul_ICU\": 34.0, \"ncumul_vent\": null, \"ncumul_released\": 16.0, \"ncumul_deceased\": 5.0, \"source\": \"https://www.vd.ch/toutes-les-actualites/hotline-et-informations-sur-le-coronavirus/\", \"ncumul_ICF\": null, \"ncumul_ICU_intub\": null, \"TotalPosTests1\": null, \"TotalCured\": null, \"ncumul_conf_10k\": 9.960645439813803, \"ncumul_deceased_10k\": 0.06256686834053896}, {\"date\": \"2020-03-19T00:00:00\", \"time\": null, \"abbreviation_canton_and_fl\": \"VD\", \"ncumul_tested\": null, \"ncumul_conf\": 1212.0, \"ncumul_hosp\": 140.0, \"ncumul_ICU\": 32.0, \"ncumul_vent\": null, \"ncumul_released\": 52.0, \"ncumul_deceased\": 7.0, \"source\": \"https://www.vd.ch/toutes-les-actualites/hotline-et-informations-sur-le-coronavirus/\", \"ncumul_ICF\": null, \"ncumul_ICU_intub\": null, \"TotalPosTests1\": null, \"TotalCured\": null, \"ncumul_conf_10k\": 15.166208885746641, \"ncumul_deceased_10k\": 0.08759361567675453}, {\"date\": \"2020-03-20T00:00:00\", \"time\": null, \"abbreviation_canton_and_fl\": \"VD\", \"ncumul_tested\": null, \"ncumul_conf\": 1432.0, \"ncumul_hosp\": 152.0, \"ncumul_ICU\": 30.0, \"ncumul_vent\": null, \"ncumul_released\": 62.0, \"ncumul_deceased\": 12.0, \"source\": \"https://www.vd.ch/toutes-les-actualites/hotline-et-informations-sur-le-coronavirus/\", \"ncumul_ICF\": null, \"ncumul_ICU_intub\": null, \"TotalPosTests1\": null, \"TotalCured\": null, \"ncumul_conf_10k\": 17.919151092730356, \"ncumul_deceased_10k\": 0.15016048401729348}, {\"date\": \"2020-03-21T00:00:00\", \"time\": null, \"abbreviation_canton_and_fl\": \"VD\", \"ncumul_tested\": null, \"ncumul_conf\": 1676.0, \"ncumul_hosp\": 175.0, \"ncumul_ICU\": 23.0, \"ncumul_vent\": null, \"ncumul_released\": 70.0, \"ncumul_deceased\": 15.0, \"source\": \"https://www.vd.ch/toutes-les-actualites/hotline-et-informations-sur-le-coronavirus/\", \"ncumul_ICF\": null, \"ncumul_ICU_intub\": null, \"TotalPosTests1\": null, \"TotalCured\": null, \"ncumul_conf_10k\": 20.972414267748654, \"ncumul_deceased_10k\": 0.18770060502161687}, {\"date\": \"2020-03-21T00:00:00\", \"time\": null, \"abbreviation_canton_and_fl\": \"AR\", \"ncumul_tested\": null, \"ncumul_conf\": null, \"ncumul_hosp\": null, \"ncumul_ICU\": null, \"ncumul_vent\": null, \"ncumul_released\": null, \"ncumul_deceased\": 1.0, \"source\": \"https://www.ar.ch/schnellzugriff/medienmitteilungen-der-kantonalen-verwaltung/detail/news/coronavirus-erster-todesfall-in-appenzell-ausserrhoden/?tx_news_pi1%5Bcontroller%5D=News&tx_news_pi1%5Baction%5D=detail&cHash=a88f209df29c38474f9c5f9e1c5dd53f\", \"ncumul_ICF\": null, \"ncumul_ICU_intub\": null, \"TotalPosTests1\": null, \"TotalCured\": null, \"ncumul_conf_10k\": null, \"ncumul_deceased_10k\": 0.6193868070610096}]}}, {\"mode\": \"vega-lite\"});\n",
+ "</script>"
+ ],
+ "text/plain": [
+ "alt.HConcatChart(...)"
+ ]
+ },
+ "metadata": {},
+ "output_type": "display_data"
+ },
+ {
+ "data": {
+ "text/html": [
+ "\n",
+ "<p style=\"font-size: smaller\">Data Sources: \n",
+ " <a href=\"https://github.com/openZH/covid_19\">OpenData Zuerich</a>,\n",
+ " <a href=\"https://www.bfs.admin.ch\">Federal Statistical Office</a>\n",
+ "<br>\n",
+ "Analysis:\n",
+ " <a href=\"https://renkulab.io/projects/covid-19/covid-19-public-data\">Covid-19 Public Data Collaboration Project</a>\n",
+ "</p>"
+ ],
+ "text/plain": [
+ "<IPython.core.display.HTML object>"
+ ]
+ },
+ "metadata": {},
+ "output_type": "display_data"
+ }
+ ],
+ "source": [
+ "base = alt.Chart(df.where(df.ncumul_deceased>0).dropna(subset=['abbreviation_canton_and_fl']))\n",
+ "base.configure_header(titleFontSize=25)\n",
+ "base.configure_axis(labelFontSize=15, titleFontSize=15)\n",
+ "\n",
+ "deaths = generate_canton_chart('ncumul_deceased', 'Deaths', 'Deaths')\n",
+ "deaths_10k = generate_canton_chart('ncumul_deceased_10k', 'Deaths per 10k population', 'Deaths/10k')\n",
+ "\n",
+ "chart = alt.hconcat(\n",
+ " deaths, deaths_10k, title='Covid-19 deaths in Switzerland by Canton'\n",
+ ").configure_title(\n",
+ " anchor='middle'\n",
+ ")\n",
+ "display(chart) \n",
+ "display(html_credits)\n",
+ "\n",
+ "if save_figures:\n",
+ " chart.save(str(Path(figures_path) / 'switzerland-deaths-by-canton.html'))\n"
+ ]
+ },
+ {
+ "cell_type": "code",
+ "execution_count": null,
+ "metadata": {
+ "papermill": {
+ "duration": 0.012967,
+ "end_time": "2020-03-23T16:52:13.569671",
+ "exception": false,
+ "start_time": "2020-03-23T16:52:13.556704",
+ "status": "completed"
+ },
+ "tags": []
+ },
+ "outputs": [],
+ "source": []
+ }
+ ],
+ "metadata": {
+ "kernelspec": {
+ "display_name": "Python 3",
+ "language": "python",
+ "name": "python3"
+ },
+ "language_info": {
+ "codemirror_mode": {
+ "name": "ipython",
+ "version": 3
+ },
+ "file_extension": ".py",
+ "mimetype": "text/x-python",
+ "name": "python",
+ "nbconvert_exporter": "python",
+ "pygments_lexer": "ipython3",
+ "version": "3.7.3"
+ },
+ "papermill": {
+ "duration": 28.212516,
+ "end_time": "2020-03-23T16:52:13.998062",
+ "environment_variables": {},
+ "exception": null,
+ "input_path": "notebooks/examples/openzh-covid-19-example.ipynb",
+ "output_path": "runs/openzh-covid-19-example.run.ipynb",
+ "parameters": {
+ "data_path": "data/openzh-covid-19/",
+ "figures_path": "figures/",
+ "save_figures": true
+ },
+ "start_time": "2020-03-23T16:51:45.785546",
+ "version": "1.1.0"
+ }
+ },
+ "nbformat": 4,
+ "nbformat_minor": 4
+}
\ No newline at end of file
--
GitLab