From ff3143c81dbc81933bace307a40e9c23700308dc Mon Sep 17 00:00:00 2001
From: =?UTF-8?q?Rok=20Ro=C5=A1kar?= <rok.roskar@sdsc.ethz.ch>
Date: Thu, 23 Apr 2020 12:25:54 +0000
Subject: [PATCH] Auto-saving for rok.roskar on branch master from commit
22e6f61
---
notebooks/covid-19-us-nyt.ipynb | 98 +++++++++-
notebooks/openzh-covid-19.ipynb | 321 +++++++++++++++++++++++++++++++-
2 files changed, 404 insertions(+), 15 deletions(-)
diff --git a/notebooks/covid-19-us-nyt.ipynb b/notebooks/covid-19-us-nyt.ipynb
index d5f457218..ee29c69eb 100644
--- a/notebooks/covid-19-us-nyt.ipynb
+++ b/notebooks/covid-19-us-nyt.ipynb
@@ -11,7 +11,7 @@
},
{
"cell_type": "code",
- "execution_count": null,
+ "execution_count": 1,
"metadata": {},
"outputs": [],
"source": [
@@ -21,7 +21,7 @@
},
{
"cell_type": "code",
- "execution_count": null,
+ "execution_count": 2,
"metadata": {},
"outputs": [],
"source": [
@@ -36,7 +36,7 @@
},
{
"cell_type": "code",
- "execution_count": null,
+ "execution_count": 3,
"metadata": {},
"outputs": [],
"source": [
@@ -52,7 +52,7 @@
},
{
"cell_type": "code",
- "execution_count": null,
+ "execution_count": 4,
"metadata": {
"tags": [
"parameters"
@@ -67,7 +67,7 @@
},
{
"cell_type": "code",
- "execution_count": null,
+ "execution_count": 5,
"metadata": {},
"outputs": [],
"source": [
@@ -87,7 +87,7 @@
},
{
"cell_type": "code",
- "execution_count": null,
+ "execution_count": 6,
"metadata": {},
"outputs": [],
"source": [
@@ -98,7 +98,7 @@
},
{
"cell_type": "code",
- "execution_count": null,
+ "execution_count": 7,
"metadata": {},
"outputs": [],
"source": [
@@ -111,7 +111,7 @@
},
{
"cell_type": "code",
- "execution_count": null,
+ "execution_count": 8,
"metadata": {},
"outputs": [],
"source": [
@@ -123,9 +123,87 @@
},
{
"cell_type": "code",
- "execution_count": null,
+ "execution_count": 9,
"metadata": {},
- "outputs": [],
+ "outputs": [
+ {
+ "data": {
+ "text/html": [
+ "\n",
+ "<div id=\"altair-viz-b7d89f1fefcc436cb89bd1925ade0f4e\"></div>\n",
+ "<script type=\"text/javascript\">\n",
+ " (function(spec, embedOpt){\n",
+ " const outputDiv = document.getElementById(\"altair-viz-b7d89f1fefcc436cb89bd1925ade0f4e\");\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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\"2020-04-17T17:00:00\", \"deceased_100k\": 117.71549106460854, \"deceased_daily\": \"\", \"deceased\": 11851, \"positive_100k\": 637.0502927540856, \"positive_daily\": \"\", \"positive\": 64135, \"region_iso\": \"IT-25\", \"state\": null, \"tested_100k\": 2418.804520767532, \"tested\": 243513.0, \"county_state\": \"Lombardy, Italy\", \"admin2_label\": \"\", \"region_label\": \"Lombardy\"}, {\"county\": null, \"admin2\": \"\", \"country_label\": \"Italy\", \"country\": \"ITA\", \"date\": \"2020-04-18T17:00:00\", \"deceased_100k\": 119.69214980411212, \"deceased_daily\": \"\", \"deceased\": 12050, \"positive_100k\": 649.4267590325854, \"positive_daily\": \"\", \"positive\": 65381, \"region_iso\": \"IT-25\", \"state\": null, \"tested_100k\": 2536.1922242019714, \"tested\": 255331.0, \"county_state\": \"Lombardy, Italy\", \"admin2_label\": \"\", \"region_label\": \"Lombardy\"}, {\"county\": null, \"admin2\": \"\", \"country_label\": \"Italy\", \"country\": \"ITA\", \"date\": \"2020-04-19T17:00:00\", \"deceased_100k\": 121.31122203797688, \"deceased_daily\": \"\", \"deceased\": 12213, \"positive_100k\": 657.9194385415079, \"positive_daily\": \"\", \"positive\": 66236, \"region_iso\": \"IT-25\", \"state\": null, \"tested_100k\": 2623.840649917447, \"tested\": 264155.0, \"county_state\": \"Lombardy, Italy\", \"admin2_label\": \"\", \"region_label\": \"Lombardy\"}]}}, {\"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/nytimes/covid-19-data\">New York Times</a>, <a href=\"https://www.census.gov/\">U.S. Census</a>,\n",
+ " <a href=\"https://github.com/pcm-dpc/COVID-19\">Italian Civil Protection</a>, <a href=\"https://wikidata.org\">Wikidata</a> \n",
+ "<br>\n",
+ "Analysis and Visualization:\n",
+ " <a href=\"https://renkulab.io/projects/covid-19/covid-19-public-data\">Covid-19 Public Data Collaboration Project @ renkulab.io</a>\n",
+ "</p>"
+ ],
+ "text/plain": [
+ "<IPython.core.display.HTML object>"
+ ]
+ },
+ "metadata": {},
+ "output_type": "display_data"
+ }
+ ],
"source": [
"base = alt.Chart(top10_df)\n",
"\n",
diff --git a/notebooks/openzh-covid-19.ipynb b/notebooks/openzh-covid-19.ipynb
index 97607cc8d..b540721da 100644
--- a/notebooks/openzh-covid-19.ipynb
+++ b/notebooks/openzh-covid-19.ipynb
@@ -2,7 +2,7 @@
"cells": [
{
"cell_type": "code",
- "execution_count": null,
+ "execution_count": 1,
"metadata": {},
"outputs": [],
"source": [
@@ -12,7 +12,7 @@
},
{
"cell_type": "code",
- "execution_count": null,
+ "execution_count": 2,
"metadata": {},
"outputs": [],
"source": [
@@ -28,7 +28,7 @@
},
{
"cell_type": "code",
- "execution_count": null,
+ "execution_count": 3,
"metadata": {
"tags": [
"parameters"
@@ -43,7 +43,7 @@
},
{
"cell_type": "code",
- "execution_count": null,
+ "execution_count": 4,
"metadata": {},
"outputs": [],
"source": [
@@ -70,7 +70,7 @@
},
{
"cell_type": "code",
- "execution_count": null,
+ "execution_count": 5,
"metadata": {},
"outputs": [],
"source": [
@@ -80,6 +80,317 @@
"df[\"canton\"] = df.apply(lambda row: row[\"region_iso\"][3:], axis=1)"
]
},
+ {
+ "cell_type": "code",
+ "execution_count": 6,
+ "metadata": {},
+ "outputs": [
+ {
+ "data": {
+ "text/html": [
+ "<div>\n",
+ "<style scoped>\n",
+ " .dataframe tbody tr th:only-of-type {\n",
+ " vertical-align: middle;\n",
+ " }\n",
+ "\n",
+ " .dataframe tbody tr th {\n",
+ " vertical-align: top;\n",
+ " }\n",
+ "\n",
+ " .dataframe thead th {\n",
+ " text-align: right;\n",
+ " }\n",
+ "</style>\n",
+ "<table border=\"1\" class=\"dataframe\">\n",
+ " <thead>\n",
+ " <tr style=\"text-align: right;\">\n",
+ " <th></th>\n",
+ " <th>admin2_label</th>\n",
+ " <th>admin2</th>\n",
+ " <th>country_label</th>\n",
+ " <th>country</th>\n",
+ " <th>date</th>\n",
+ " <th>deceased_100k</th>\n",
+ " <th>deceased_daily</th>\n",
+ " <th>deceased</th>\n",
+ " <th>positive_100k</th>\n",
+ " <th>positive_daily</th>\n",
+ " <th>positive</th>\n",
+ " <th>region_iso</th>\n",
+ " <th>region_label</th>\n",
+ " <th>tested_100k</th>\n",
+ " <th>tested</th>\n",
+ " <th>canton</th>\n",
+ " </tr>\n",
+ " </thead>\n",
+ " <tbody>\n",
+ " <tr>\n",
+ " <th>0</th>\n",
+ " <td></td>\n",
+ " <td></td>\n",
+ " <td>Switzerland</td>\n",
+ " <td>CHE</td>\n",
+ " <td>2020-02-28</td>\n",
+ " <td>NaN</td>\n",
+ " <td></td>\n",
+ " <td>NaN</td>\n",
+ " <td>NaN</td>\n",
+ " <td></td>\n",
+ " <td>NaN</td>\n",
+ " <td>CH-VD</td>\n",
+ " <td>Vaud</td>\n",
+ " <td>NaN</td>\n",
+ " <td>NaN</td>\n",
+ " <td>VD</td>\n",
+ " </tr>\n",
+ " <tr>\n",
+ " <th>1</th>\n",
+ " <td></td>\n",
+ " <td></td>\n",
+ " <td>Switzerland</td>\n",
+ " <td>CHE</td>\n",
+ " <td>2020-02-29</td>\n",
+ " <td>NaN</td>\n",
+ " <td></td>\n",
+ " <td>NaN</td>\n",
+ " <td>NaN</td>\n",
+ " <td></td>\n",
+ " <td>NaN</td>\n",
+ " <td>CH-VD</td>\n",
+ " <td>Vaud</td>\n",
+ " <td>NaN</td>\n",
+ " <td>NaN</td>\n",
+ " <td>VD</td>\n",
+ " </tr>\n",
+ " <tr>\n",
+ " <th>2</th>\n",
+ " <td></td>\n",
+ " <td></td>\n",
+ " <td>Switzerland</td>\n",
+ " <td>CHE</td>\n",
+ " <td>2020-03-01</td>\n",
+ " <td>NaN</td>\n",
+ " <td></td>\n",
+ " <td>NaN</td>\n",
+ " <td>NaN</td>\n",
+ " <td></td>\n",
+ " <td>NaN</td>\n",
+ " <td>CH-VD</td>\n",
+ " <td>Vaud</td>\n",
+ " <td>NaN</td>\n",
+ " <td>NaN</td>\n",
+ " <td>VD</td>\n",
+ " </tr>\n",
+ " <tr>\n",
+ " <th>3</th>\n",
+ " <td></td>\n",
+ " <td></td>\n",
+ " <td>Switzerland</td>\n",
+ " <td>CHE</td>\n",
+ " <td>2020-03-02</td>\n",
+ " <td>NaN</td>\n",
+ " <td></td>\n",
+ " <td>NaN</td>\n",
+ " <td>NaN</td>\n",
+ " <td></td>\n",
+ " <td>NaN</td>\n",
+ " <td>CH-VD</td>\n",
+ " <td>Vaud</td>\n",
+ " <td>NaN</td>\n",
+ " <td>NaN</td>\n",
+ " <td>VD</td>\n",
+ " </tr>\n",
+ " <tr>\n",
+ " <th>4</th>\n",
+ " <td></td>\n",
+ " <td></td>\n",
+ " <td>Switzerland</td>\n",
+ " <td>CHE</td>\n",
+ " <td>2020-03-03</td>\n",
+ " <td>NaN</td>\n",
+ " <td></td>\n",
+ " <td>NaN</td>\n",
+ " <td>NaN</td>\n",
+ " <td></td>\n",
+ " <td>NaN</td>\n",
+ " <td>CH-VD</td>\n",
+ " <td>Vaud</td>\n",
+ " <td>NaN</td>\n",
+ " <td>NaN</td>\n",
+ " <td>VD</td>\n",
+ " </tr>\n",
+ " <tr>\n",
+ " <th>...</th>\n",
+ " <td>...</td>\n",
+ " <td>...</td>\n",
+ " <td>...</td>\n",
+ " <td>...</td>\n",
+ " <td>...</td>\n",
+ " <td>...</td>\n",
+ " <td>...</td>\n",
+ " <td>...</td>\n",
+ " <td>...</td>\n",
+ " <td>...</td>\n",
+ " <td>...</td>\n",
+ " <td>...</td>\n",
+ " <td>...</td>\n",
+ " <td>...</td>\n",
+ " <td>...</td>\n",
+ " <td>...</td>\n",
+ " </tr>\n",
+ " <tr>\n",
+ " <th>1014</th>\n",
+ " <td></td>\n",
+ " <td></td>\n",
+ " <td>Switzerland</td>\n",
+ " <td>CHE</td>\n",
+ " <td>2020-04-16</td>\n",
+ " <td>1.219646</td>\n",
+ " <td></td>\n",
+ " <td>1.0</td>\n",
+ " <td>73.178764</td>\n",
+ " <td></td>\n",
+ " <td>60.0</td>\n",
+ " <td>CH-SH</td>\n",
+ " <td>Schaffhausen</td>\n",
+ " <td>NaN</td>\n",
+ " <td>NaN</td>\n",
+ " <td>SH</td>\n",
+ " </tr>\n",
+ " <tr>\n",
+ " <th>1015</th>\n",
+ " <td></td>\n",
+ " <td></td>\n",
+ " <td>Switzerland</td>\n",
+ " <td>CHE</td>\n",
+ " <td>2020-04-17</td>\n",
+ " <td>1.219646</td>\n",
+ " <td></td>\n",
+ " <td>1.0</td>\n",
+ " <td>73.178764</td>\n",
+ " <td></td>\n",
+ " <td>60.0</td>\n",
+ " <td>CH-SH</td>\n",
+ " <td>Schaffhausen</td>\n",
+ " <td>NaN</td>\n",
+ " <td>NaN</td>\n",
+ " <td>SH</td>\n",
+ " </tr>\n",
+ " <tr>\n",
+ " <th>1016</th>\n",
+ " <td></td>\n",
+ " <td></td>\n",
+ " <td>Switzerland</td>\n",
+ " <td>CHE</td>\n",
+ " <td>2020-04-18</td>\n",
+ " <td>1.219646</td>\n",
+ " <td></td>\n",
+ " <td>1.0</td>\n",
+ " <td>74.398410</td>\n",
+ " <td></td>\n",
+ " <td>61.0</td>\n",
+ " <td>CH-SH</td>\n",
+ " <td>Schaffhausen</td>\n",
+ " <td>NaN</td>\n",
+ " <td>NaN</td>\n",
+ " <td>SH</td>\n",
+ " </tr>\n",
+ " <tr>\n",
+ " <th>1017</th>\n",
+ " <td></td>\n",
+ " <td></td>\n",
+ " <td>Switzerland</td>\n",
+ " <td>CHE</td>\n",
+ " <td>2020-04-19</td>\n",
+ " <td>1.219646</td>\n",
+ " <td></td>\n",
+ " <td>1.0</td>\n",
+ " <td>75.618056</td>\n",
+ " <td></td>\n",
+ " <td>62.0</td>\n",
+ " <td>CH-SH</td>\n",
+ " <td>Schaffhausen</td>\n",
+ " <td>NaN</td>\n",
+ " <td>NaN</td>\n",
+ " <td>SH</td>\n",
+ " </tr>\n",
+ " <tr>\n",
+ " <th>1018</th>\n",
+ " <td></td>\n",
+ " <td></td>\n",
+ " <td>Switzerland</td>\n",
+ " <td>CHE</td>\n",
+ " <td>2020-04-20</td>\n",
+ " <td>1.219646</td>\n",
+ " <td></td>\n",
+ " <td>1.0</td>\n",
+ " <td>76.837702</td>\n",
+ " <td></td>\n",
+ " <td>63.0</td>\n",
+ " <td>CH-SH</td>\n",
+ " <td>Schaffhausen</td>\n",
+ " <td>NaN</td>\n",
+ " <td>NaN</td>\n",
+ " <td>SH</td>\n",
+ " </tr>\n",
+ " </tbody>\n",
+ "</table>\n",
+ "<p>1019 rows × 16 columns</p>\n",
+ "</div>"
+ ],
+ "text/plain": [
+ " admin2_label admin2 country_label country date deceased_100k \\\n",
+ "0 Switzerland CHE 2020-02-28 NaN \n",
+ "1 Switzerland CHE 2020-02-29 NaN \n",
+ "2 Switzerland CHE 2020-03-01 NaN \n",
+ "3 Switzerland CHE 2020-03-02 NaN \n",
+ "4 Switzerland CHE 2020-03-03 NaN \n",
+ "... ... ... ... ... ... ... \n",
+ "1014 Switzerland CHE 2020-04-16 1.219646 \n",
+ "1015 Switzerland CHE 2020-04-17 1.219646 \n",
+ "1016 Switzerland CHE 2020-04-18 1.219646 \n",
+ "1017 Switzerland CHE 2020-04-19 1.219646 \n",
+ "1018 Switzerland CHE 2020-04-20 1.219646 \n",
+ "\n",
+ " deceased_daily deceased positive_100k positive_daily positive \\\n",
+ "0 NaN NaN NaN \n",
+ "1 NaN NaN NaN \n",
+ "2 NaN NaN NaN \n",
+ "3 NaN NaN NaN \n",
+ "4 NaN NaN NaN \n",
+ "... ... ... ... ... ... \n",
+ "1014 1.0 73.178764 60.0 \n",
+ "1015 1.0 73.178764 60.0 \n",
+ "1016 1.0 74.398410 61.0 \n",
+ "1017 1.0 75.618056 62.0 \n",
+ "1018 1.0 76.837702 63.0 \n",
+ "\n",
+ " region_iso region_label tested_100k tested canton \n",
+ "0 CH-VD Vaud NaN NaN VD \n",
+ "1 CH-VD Vaud NaN NaN VD \n",
+ "2 CH-VD Vaud NaN NaN VD \n",
+ "3 CH-VD Vaud NaN NaN VD \n",
+ "4 CH-VD Vaud NaN NaN VD \n",
+ "... ... ... ... ... ... \n",
+ "1014 CH-SH Schaffhausen NaN NaN SH \n",
+ "1015 CH-SH Schaffhausen NaN NaN SH \n",
+ "1016 CH-SH Schaffhausen NaN NaN SH \n",
+ "1017 CH-SH Schaffhausen NaN NaN SH \n",
+ "1018 CH-SH Schaffhausen NaN NaN SH \n",
+ "\n",
+ "[1019 rows x 16 columns]"
+ ]
+ },
+ "execution_count": 6,
+ "metadata": {},
+ "output_type": "execute_result"
+ }
+ ],
+ "source": [
+ "df"
+ ]
+ },
{
"cell_type": "markdown",
"metadata": {},
--
GitLab