From aa1f8011b0648f153a970ee22c40372327b4fb88 Mon Sep 17 00:00:00 2001
From: =?UTF-8?q?Rok=20Ro=C5=A1kar?= <rok.roskar@sdsc.ethz.ch>
Date: Mon, 30 Mar 2020 15:46:54 +0000
Subject: [PATCH] italy: update notebook metadata
---
notebooks/examples/italy-covid-19.ipynb | 341 ++++++++++++++++++++----
1 file changed, 290 insertions(+), 51 deletions(-)
diff --git a/notebooks/examples/italy-covid-19.ipynb b/notebooks/examples/italy-covid-19.ipynb
index 5bfc527..2c80958 100644
--- a/notebooks/examples/italy-covid-19.ipynb
+++ b/notebooks/examples/italy-covid-19.ipynb
@@ -21,7 +21,7 @@
},
{
"cell_type": "code",
- "execution_count": 4,
+ "execution_count": 2,
"metadata": {},
"outputs": [],
"source": [
@@ -37,7 +37,7 @@
},
{
"cell_type": "code",
- "execution_count": 5,
+ "execution_count": 3,
"metadata": {},
"outputs": [],
"source": [
@@ -52,7 +52,7 @@
},
{
"cell_type": "code",
- "execution_count": 9,
+ "execution_count": 4,
"metadata": {
"tags": [
"parameters"
@@ -65,7 +65,7 @@
},
{
"cell_type": "code",
- "execution_count": 10,
+ "execution_count": 5,
"metadata": {},
"outputs": [],
"source": [
@@ -79,7 +79,7 @@
},
{
"cell_type": "code",
- "execution_count": 11,
+ "execution_count": 6,
"metadata": {},
"outputs": [],
"source": [
@@ -97,24 +97,84 @@
},
{
"cell_type": "code",
- "execution_count": 12,
+ "execution_count": 7,
"metadata": {},
"outputs": [
{
- "output_type": "display_data",
"data": {
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+ "Analysis and Visualization:\n",
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@@ -160,7 +220,7 @@
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- "text/plain": "alt.FacetChart(...)"
+ "text/html": [
+ "\n",
+ "<div id=\"altair-viz-2b19726bce2343dc8f7b539d73e850c3\"></div>\n",
+ "<script type=\"text/javascript\">\n",
+ " (function(spec, embedOpt){\n",
+ " const outputDiv = document.getElementById(\"altair-viz-2b19726bce2343dc8f7b539d73e850c3\");\n",
+ " const paths = {\n",
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+ " \"vega-lib\": \"https://cdn.jsdelivr.net/npm//vega-lib?noext\",\n",
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+ " \"vega-embed\": \"https://cdn.jsdelivr.net/npm//vega-embed@6?noext\",\n",
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+ " s.onerror = () => reject(`Error loading script: ${paths[lib]}`);\n",
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+ " .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",
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+ " .then(() => loadScript(\"vega-embed\"))\n",
+ " .catch(showError)\n",
+ " .then(() => displayChart(vegaEmbed));\n",
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- "text/html": "\n<p style=\"font-size: smaller\">Data Sources: \n <a href=\"https://github.com/pcm-dpc/COVID-19\">Italian Civil Protection</a>, <a href=\"https://wikidata.org\">Wikidata</a>\n<br>\nAnalysis and Visualization:\n <a href=\"https://renkulab.io/projects/covid-19/covid-19-public-data\">Covid-19 Public Data Collaboration Project</a>\n</p>"
+ "text/html": [
+ "\n",
+ "<p style=\"font-size: smaller\">Data Sources: \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</a>\n",
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@@ -236,24 +356,84 @@
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{
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\"tests_100k\": 953.2060775397379, \"dead_100k\": 8.766399695600759}, {\"date\": \"2020-03-25T17:00:00\", \"country_code\": \"ITA\", \"region_code\": 4, \"region\": \"Trentino Alto Adige\", \"latitude\": 46.4337, \"longitude\": 11.1693, \"hospitalised_with_symptoms\": 498, \"intensive_care\": 105, \"total_hospitalised\": 603, \"home_confinement\": 1203, \"total_current_positive\": 1806, \"new_current_positive\": 132, \"recovered\": 157, \"dead\": 117, \"total_cases\": 2080, \"tests\": 10763, \"total_cases_100k\": 193.97990815797425, \"tests_100k\": 1003.752765146287, \"dead_100k\": 10.911369833886052}, {\"date\": \"2020-03-26T17:00:00\", \"country_code\": \"ITA\", \"region_code\": 4, \"region\": \"Trentino Alto Adige\", \"latitude\": 46.4337, \"longitude\": 11.1693, \"hospitalised_with_symptoms\": 523, \"intensive_care\": 109, \"total_hospitalised\": 632, \"home_confinement\": 1253, \"total_current_positive\": 1885, \"new_current_positive\": 79, \"recovered\": 184, \"dead\": 134, \"total_cases\": 2203, \"tests\": 12344, \"total_cases_100k\": 205.45083541923907, \"tests_100k\": 1151.1961472605933, \"dead_100k\": 12.496782544792572}, {\"date\": \"2020-03-27T17:00:00\", \"country_code\": \"ITA\", \"region_code\": 4, \"region\": \"Trentino Alto Adige\", \"latitude\": 46.4337, \"longitude\": 11.1693, \"hospitalised_with_symptoms\": 590, \"intensive_care\": 111, \"total_hospitalised\": 701, \"home_confinement\": 1296, \"total_current_positive\": 1997, \"new_current_positive\": 112, \"recovered\": 235, \"dead\": 162, \"total_cases\": 2394, \"tests\": 13443, \"total_cases_100k\": 223.26341352413, \"tests_100k\": 1253.6884160421384, \"dead_100k\": 15.10805053922684}, {\"date\": \"2020-03-28T17:00:00\", \"country_code\": \"ITA\", \"region_code\": 4, \"region\": \"Trentino Alto Adige\", \"latitude\": 46.4337, \"longitude\": 11.1693, \"hospitalised_with_symptoms\": 576, \"intensive_care\": 123, \"total_hospitalised\": 699, \"home_confinement\": 1464, \"total_current_positive\": 2163, \"new_current_positive\": 166, \"recovered\": 267, \"dead\": 184, \"total_cases\": 2614, \"tests\": 14729, \"total_cases_100k\": 243.78051919468493, \"tests_100k\": 1373.620224643655, \"dead_100k\": 17.159761106282335}, {\"date\": \"2020-03-29T17:00:00\", \"country_code\": \"ITA\", \"region_code\": 4, \"region\": \"Trentino Alto Adige\", \"latitude\": 46.4337, \"longitude\": 11.1693, \"hospitalised_with_symptoms\": 590, \"intensive_care\": 131, \"total_hospitalised\": 721, \"home_confinement\": 1606, \"total_current_positive\": 2327, \"new_current_positive\": 164, \"recovered\": 288, \"dead\": 193, \"total_cases\": 2808, \"tests\": 16087, \"total_cases_100k\": 261.8728760132652, \"tests_100k\": 1500.2667223737171, \"dead_100k\": 17.999097247350495}]}}, {\"mode\": \"vega-lite\"});\n",
+ "</script>"
+ ],
+ "text/plain": [
+ "alt.FacetChart(...)"
+ ]
},
- "metadata": {}
+ "metadata": {},
+ "output_type": "display_data"
},
{
- "output_type": "display_data",
"data": {
- "text/plain": "<IPython.core.display.HTML object>",
- "text/html": "\n<p style=\"font-size: smaller\">Data Sources: \n <a href=\"https://github.com/pcm-dpc/COVID-19\">Italian Civil Protection</a>, <a href=\"https://wikidata.org\">Wikidata</a>\n<br>\nAnalysis and Visualization:\n <a href=\"https://renkulab.io/projects/covid-19/covid-19-public-data\">Covid-19 Public Data Collaboration Project</a>\n</p>"
+ "text/html": [
+ "\n",
+ "<p style=\"font-size: smaller\">Data Sources: \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</a>\n",
+ "</p>"
+ ],
+ "text/plain": [
+ "<IPython.core.display.HTML object>"
+ ]
},
- "metadata": {}
+ "metadata": {},
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"source": [
@@ -278,37 +458,96 @@
},
{
"cell_type": "code",
- "execution_count": 19,
+ "execution_count": 13,
"metadata": {},
"outputs": [],
"source": [
"# compute daily differences\n",
"tdf = df_regions.sort_values(['region', 'date'], ascending=[True, False]).set_index(['region', 'date'])\n",
"diffs_df = tdf[['total_cases', 'dead']].groupby(level='region').diff(periods=-1).dropna(how='all')\n",
- "tdf_diff=tdf.join(diffs_df, rsuffix='_diff').reset_index()\n",
- ""
+ "tdf_diff=tdf.join(diffs_df, rsuffix='_diff').reset_index()\n"
]
},
{
"cell_type": "code",
- "execution_count": 20,
+ "execution_count": 14,
"metadata": {},
"outputs": [
{
- "output_type": "display_data",
"data": {
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6.725509782177552, \"total_cases_diff\": 160.0, \"dead_diff\": 12.0}, {\"region\": \"Abruzzo\", \"date\": \"2020-03-28T17:00:00\", \"country_code\": \"ITA\", \"region_code\": 13, \"latitude\": 42.35122196, \"longitude\": 13.39843823, \"hospitalised_with_symptoms\": 311, \"intensive_care\": 70, \"total_hospitalised\": 381, \"home_confinement\": 646, \"total_current_positive\": 1027, \"new_current_positive\": 102, \"recovered\": 30, \"dead\": 76, \"total_cases\": 1133, \"tests\": 7003, \"total_cases_100k\": 86.59093844553598, \"tests_100k\": 535.2130114157886, \"dead_100k\": 5.808394811880612, \"total_cases_diff\": 116.0, \"dead_diff\": 8.0}, {\"region\": \"Abruzzo\", \"date\": \"2020-03-27T17:00:00\", \"country_code\": \"ITA\", \"region_code\": 13, \"latitude\": 42.35122196, \"longitude\": 13.39843823, \"hospitalised_with_symptoms\": 289, \"intensive_care\": 71, \"total_hospitalised\": 360, \"home_confinement\": 565, \"total_current_positive\": 925, \"new_current_positive\": 65, 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\"hospitalised_with_symptoms\": 248, \"intensive_care\": 59, \"total_hospitalised\": 307, \"home_confinement\": 431, \"total_current_positive\": 738, \"new_current_positive\": 116, \"recovered\": 23, \"dead\": 52, \"total_cases\": 813, \"tests\": 4982, \"total_cases_100k\": 62.13453923761761, \"tests_100k\": 380.75556516827913, \"dead_100k\": 3.9741648712867352, \"total_cases_diff\": 124.0, \"dead_diff\": 6.0}, {\"region\": \"Abruzzo\", \"date\": \"2020-03-24T17:00:00\", \"country_code\": \"ITA\", \"region_code\": 13, \"latitude\": 42.35122196, \"longitude\": 13.39843823, \"hospitalised_with_symptoms\": 234, \"intensive_care\": 57, \"total_hospitalised\": 291, \"home_confinement\": 331, \"total_current_positive\": 622, \"new_current_positive\": 17, \"recovered\": 21, \"dead\": 46, \"total_cases\": 689, \"tests\": 4294, \"total_cases_100k\": 52.65768454454924, \"tests_100k\": 328.1743068712546, \"dead_100k\": 3.515607386138266, \"total_cases_diff\": 26.0, \"dead_diff\": 8.0}, 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\"total_cases_100k\": 44.86220729702526, \"tests_100k\": 257.93858539601405, \"dead_100k\": 2.5220661683165817, \"total_cases_diff\": 58.0, \"dead_diff\": 11.0}, {\"region\": \"Abruzzo\", \"date\": \"2020-03-21T17:00:00\", \"country_code\": \"ITA\", \"region_code\": 13, \"latitude\": 42.35122196, \"longitude\": 13.39843823, \"hospitalised_with_symptoms\": 185, \"intensive_care\": 44, \"total_hospitalised\": 229, \"home_confinement\": 265, \"total_current_positive\": 494, \"new_current_positive\": 72, \"recovered\": 13, \"dead\": 22, \"total_cases\": 529, \"tests\": 3035, \"total_cases_100k\": 40.42948494059006, \"tests_100k\": 231.9536612376008, \"dead_100k\": 1.681377445544388, \"total_cases_diff\": 80.0, \"dead_diff\": 5.0}, {\"region\": \"Abruzzo\", \"date\": \"2020-03-20T17:00:00\", \"country_code\": \"ITA\", \"region_code\": 13, \"latitude\": 42.35122196, \"longitude\": 13.39843823, \"hospitalised_with_symptoms\": 190, \"intensive_care\": 48, \"total_hospitalised\": 238, 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\"recovered\": 6, \"dead\": 3, \"total_cases\": 137, \"tests\": 1419, \"total_cases_100k\": 10.470395910890053, \"tests_100k\": 108.44884523761303, \"dead_100k\": 0.22927874257423472, \"total_cases_diff\": 25.0, \"dead_diff\": 1.0}, {\"region\": \"Abruzzo\", \"date\": \"2020-03-14T17:00:00\", \"country_code\": \"ITA\", \"region_code\": 13, \"latitude\": 42.35122196, \"longitude\": 13.39843823, \"hospitalised_with_symptoms\": 51, \"intensive_care\": 14, \"total_hospitalised\": 65, \"home_confinement\": 41, \"total_current_positive\": 106, \"new_current_positive\": 23, \"recovered\": 4, \"dead\": 2, \"total_cases\": 112, \"tests\": 1232, \"total_cases_100k\": 8.559739722771429, \"tests_100k\": 94.15713695048572, \"dead_100k\": 0.15285249504948983, \"total_cases_diff\": 23.0, \"dead_diff\": 0.0}, {\"region\": \"Abruzzo\", \"date\": \"2020-03-13T17:00:00\", \"country_code\": \"ITA\", \"region_code\": 13, \"latitude\": 42.35122196, \"longitude\": 13.39843823, \"hospitalised_with_symptoms\": 42, \"intensive_care\": 14, \"total_hospitalised\": 56, \"home_confinement\": 27, \"total_current_positive\": 83, \"new_current_positive\": 5, \"recovered\": 4, \"dead\": 2, \"total_cases\": 89, \"tests\": 958, \"total_cases_100k\": 6.801936029702297, \"tests_100k\": 73.21634512870563, \"dead_100k\": 0.15285249504948983, \"total_cases_diff\": 5.0, \"dead_diff\": 0.0}, {\"region\": \"Abruzzo\", \"date\": \"2020-03-12T17:00:00\", \"country_code\": \"ITA\", \"region_code\": 13, \"latitude\": 42.35122196, \"longitude\": 13.39843823, \"hospitalised_with_symptoms\": 47, \"intensive_care\": 12, \"total_hospitalised\": 59, \"home_confinement\": 19, \"total_current_positive\": 78, \"new_current_positive\": 41, \"recovered\": 4, \"dead\": 2, \"total_cases\": 84, \"tests\": 867, \"total_cases_100k\": 6.419804792078572, \"tests_100k\": 66.26155660395384, \"dead_100k\": 0.15285249504948983, \"total_cases_diff\": 46.0, \"dead_diff\": 1.0}, {\"region\": \"Abruzzo\", \"date\": \"2020-03-11T17:00:00\", 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- "text/plain": "alt.FacetChart(...)"
+ "text/html": [
+ "\n",
+ "<div id=\"altair-viz-302cda8eab454dc0a453fca37f0968a3\"></div>\n",
+ "<script type=\"text/javascript\">\n",
+ " (function(spec, embedOpt){\n",
+ " const outputDiv = document.getElementById(\"altair-viz-302cda8eab454dc0a453fca37f0968a3\");\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",
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+ " \"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",
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+ " 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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@@ -349,9 +588,9 @@
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\ No newline at end of file
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--
GitLab