Skip to content

Instantly share code, notes, and snippets.

@lisphilar
Created January 8, 2023 21:57
Show Gist options
  • Save lisphilar/0413f34bf3f97e1d78141cd61cc43b8f to your computer and use it in GitHub Desktop.
Save lisphilar/0413f34bf3f97e1d78141cd61cc43b8f to your computer and use it in GitHub Desktop.
downloading_20230109.ipynb
Display the source blob
Display the rendered blob
Raw
{
"nbformat": 4,
"nbformat_minor": 0,
"metadata": {
"colab": {
"provenance": [],
"authorship_tag": "ABX9TyO8IQFkbJS4XZed1gh1yxle",
"include_colab_link": true
},
"kernelspec": {
"name": "python3",
"display_name": "Python 3"
},
"language_info": {
"name": "python"
}
},
"cells": [
{
"cell_type": "markdown",
"metadata": {
"id": "view-in-github",
"colab_type": "text"
},
"source": [
"<a href=\"https://colab.research.google.com/gist/lisphilar/0413f34bf3f97e1d78141cd61cc43b8f/downloading_20230109.ipynb\" target=\"_parent\"><img src=\"https://colab.research.google.com/assets/colab-badge.svg\" alt=\"Open In Colab\"/></a>"
]
},
{
"cell_type": "code",
"execution_count": null,
"metadata": {
"id": "wuPoXo88VSV-"
},
"outputs": [],
"source": [
"!pip install covsirphy"
]
},
{
"cell_type": "code",
"source": [
"import covsirphy as cs\n",
"dl = cs.DataDownloader()\n",
"dl.layer()"
],
"metadata": {
"colab": {
"base_uri": "https://localhost:8080/",
"height": 592
},
"id": "uf_ZACcbVWCo",
"outputId": "e1dd0be4-451e-4b82-b064-b99abe796976"
},
"execution_count": 2,
"outputs": [
{
"output_type": "stream",
"name": "stderr",
"text": [
"/usr/local/lib/python3.8/dist-packages/statsmodels/tsa/base/tsa_model.py:7: FutureWarning: pandas.Int64Index is deprecated and will be removed from pandas in a future version. Use pandas.Index with the appropriate dtype instead.\n",
" from pandas import (to_datetime, Int64Index, DatetimeIndex, Period,\n",
"/usr/local/lib/python3.8/dist-packages/statsmodels/tsa/base/tsa_model.py:7: FutureWarning: pandas.Float64Index is deprecated and will be removed from pandas in a future version. Use pandas.Index with the appropriate dtype instead.\n",
" from pandas import (to_datetime, Int64Index, DatetimeIndex, Period,\n",
"<ipython-input-2-d9ba995b9a17>:3: DeprecationWarning: Please use `databases=['japan', 'covid19dh', 'owid']` and refer to https://github.com/lisphilar/covid19-sir/issues/1223\n",
" dl.layer()\n"
]
},
{
"output_type": "execute_result",
"data": {
"text/plain": [
" ISO3 Province City Date Cancel_events Confirmed \\\n",
"0 ABW - - 2020-01-22 0.0 <NA> \n",
"1 ABW - - 2020-01-23 0.0 <NA> \n",
"2 ABW - - 2020-01-24 0.0 <NA> \n",
"3 ABW - - 2020-01-25 0.0 <NA> \n",
"4 ABW - - 2020-01-26 0.0 <NA> \n",
"... ... ... ... ... ... ... \n",
"247337 ZWE - - 2023-01-03 <NA> 259981.0 \n",
"247338 ZWE - - 2023-01-04 <NA> 259981.0 \n",
"247339 ZWE - - 2023-01-05 <NA> 259981.0 \n",
"247340 ZWE - - 2023-01-06 <NA> 259981.0 \n",
"247341 ZWE - - 2023-01-07 <NA> 259981.0 \n",
"\n",
" Contact_tracing Country Fatal Gatherings_restrictions ... \\\n",
"0 0.0 Aruba <NA> 0.0 ... \n",
"1 0.0 Aruba <NA> 0.0 ... \n",
"2 0.0 Aruba <NA> 0.0 ... \n",
"3 0.0 Aruba <NA> 0.0 ... \n",
"4 0.0 Aruba <NA> 0.0 ... \n",
"... ... ... ... ... ... \n",
"247337 <NA> Zimbabwe 5637.0 <NA> ... \n",
"247338 <NA> Zimbabwe 5637.0 <NA> ... \n",
"247339 <NA> Zimbabwe 5637.0 <NA> ... \n",
"247340 <NA> Zimbabwe 5637.0 <NA> ... \n",
"247341 <NA> Zimbabwe 5637.0 <NA> ... \n",
"\n",
" Stay_home_restrictions Stringency_index Testing_policy Tests \\\n",
"0 0.0 0.0 0.0 <NA> \n",
"1 0.0 0.0 0.0 <NA> \n",
"2 0.0 0.0 0.0 <NA> \n",
"3 0.0 0.0 0.0 <NA> \n",
"4 0.0 0.0 0.0 <NA> \n",
"... ... ... ... ... \n",
"247337 <NA> <NA> <NA> <NA> \n",
"247338 <NA> <NA> <NA> <NA> \n",
"247339 <NA> <NA> <NA> <NA> \n",
"247340 <NA> <NA> <NA> <NA> \n",
"247341 <NA> <NA> <NA> <NA> \n",
"\n",
" Transport_closing Vaccinated_full Vaccinated_once Vaccinations \\\n",
"0 0.0 <NA> <NA> <NA> \n",
"1 0.0 <NA> <NA> <NA> \n",
"2 0.0 <NA> <NA> <NA> \n",
"3 0.0 <NA> <NA> <NA> \n",
"4 0.0 <NA> <NA> <NA> \n",
"... ... ... ... ... \n",
"247337 <NA> <NA> <NA> <NA> \n",
"247338 <NA> <NA> <NA> <NA> \n",
"247339 <NA> <NA> <NA> <NA> \n",
"247340 <NA> <NA> <NA> <NA> \n",
"247341 <NA> <NA> <NA> <NA> \n",
"\n",
" Vaccinations_boosters Workplace_closing \n",
"0 <NA> 0.0 \n",
"1 <NA> 0.0 \n",
"2 <NA> 0.0 \n",
"3 <NA> 0.0 \n",
"4 <NA> 0.0 \n",
"... ... ... \n",
"247337 <NA> <NA> \n",
"247338 <NA> <NA> \n",
"247339 <NA> <NA> \n",
"247340 <NA> <NA> \n",
"247341 <NA> <NA> \n",
"\n",
"[247342 rows x 33 columns]"
],
"text/html": [
"\n",
" <div id=\"df-928b739b-cb15-4395-9269-28303cac5ef7\">\n",
" <div class=\"colab-df-container\">\n",
" <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>ISO3</th>\n",
" <th>Province</th>\n",
" <th>City</th>\n",
" <th>Date</th>\n",
" <th>Cancel_events</th>\n",
" <th>Confirmed</th>\n",
" <th>Contact_tracing</th>\n",
" <th>Country</th>\n",
" <th>Fatal</th>\n",
" <th>Gatherings_restrictions</th>\n",
" <th>...</th>\n",
" <th>Stay_home_restrictions</th>\n",
" <th>Stringency_index</th>\n",
" <th>Testing_policy</th>\n",
" <th>Tests</th>\n",
" <th>Transport_closing</th>\n",
" <th>Vaccinated_full</th>\n",
" <th>Vaccinated_once</th>\n",
" <th>Vaccinations</th>\n",
" <th>Vaccinations_boosters</th>\n",
" <th>Workplace_closing</th>\n",
" </tr>\n",
" </thead>\n",
" <tbody>\n",
" <tr>\n",
" <th>0</th>\n",
" <td>ABW</td>\n",
" <td>-</td>\n",
" <td>-</td>\n",
" <td>2020-01-22</td>\n",
" <td>0.0</td>\n",
" <td>&lt;NA&gt;</td>\n",
" <td>0.0</td>\n",
" <td>Aruba</td>\n",
" <td>&lt;NA&gt;</td>\n",
" <td>0.0</td>\n",
" <td>...</td>\n",
" <td>0.0</td>\n",
" <td>0.0</td>\n",
" <td>0.0</td>\n",
" <td>&lt;NA&gt;</td>\n",
" <td>0.0</td>\n",
" <td>&lt;NA&gt;</td>\n",
" <td>&lt;NA&gt;</td>\n",
" <td>&lt;NA&gt;</td>\n",
" <td>&lt;NA&gt;</td>\n",
" <td>0.0</td>\n",
" </tr>\n",
" <tr>\n",
" <th>1</th>\n",
" <td>ABW</td>\n",
" <td>-</td>\n",
" <td>-</td>\n",
" <td>2020-01-23</td>\n",
" <td>0.0</td>\n",
" <td>&lt;NA&gt;</td>\n",
" <td>0.0</td>\n",
" <td>Aruba</td>\n",
" <td>&lt;NA&gt;</td>\n",
" <td>0.0</td>\n",
" <td>...</td>\n",
" <td>0.0</td>\n",
" <td>0.0</td>\n",
" <td>0.0</td>\n",
" <td>&lt;NA&gt;</td>\n",
" <td>0.0</td>\n",
" <td>&lt;NA&gt;</td>\n",
" <td>&lt;NA&gt;</td>\n",
" <td>&lt;NA&gt;</td>\n",
" <td>&lt;NA&gt;</td>\n",
" <td>0.0</td>\n",
" </tr>\n",
" <tr>\n",
" <th>2</th>\n",
" <td>ABW</td>\n",
" <td>-</td>\n",
" <td>-</td>\n",
" <td>2020-01-24</td>\n",
" <td>0.0</td>\n",
" <td>&lt;NA&gt;</td>\n",
" <td>0.0</td>\n",
" <td>Aruba</td>\n",
" <td>&lt;NA&gt;</td>\n",
" <td>0.0</td>\n",
" <td>...</td>\n",
" <td>0.0</td>\n",
" <td>0.0</td>\n",
" <td>0.0</td>\n",
" <td>&lt;NA&gt;</td>\n",
" <td>0.0</td>\n",
" <td>&lt;NA&gt;</td>\n",
" <td>&lt;NA&gt;</td>\n",
" <td>&lt;NA&gt;</td>\n",
" <td>&lt;NA&gt;</td>\n",
" <td>0.0</td>\n",
" </tr>\n",
" <tr>\n",
" <th>3</th>\n",
" <td>ABW</td>\n",
" <td>-</td>\n",
" <td>-</td>\n",
" <td>2020-01-25</td>\n",
" <td>0.0</td>\n",
" <td>&lt;NA&gt;</td>\n",
" <td>0.0</td>\n",
" <td>Aruba</td>\n",
" <td>&lt;NA&gt;</td>\n",
" <td>0.0</td>\n",
" <td>...</td>\n",
" <td>0.0</td>\n",
" <td>0.0</td>\n",
" <td>0.0</td>\n",
" <td>&lt;NA&gt;</td>\n",
" <td>0.0</td>\n",
" <td>&lt;NA&gt;</td>\n",
" <td>&lt;NA&gt;</td>\n",
" <td>&lt;NA&gt;</td>\n",
" <td>&lt;NA&gt;</td>\n",
" <td>0.0</td>\n",
" </tr>\n",
" <tr>\n",
" <th>4</th>\n",
" <td>ABW</td>\n",
" <td>-</td>\n",
" <td>-</td>\n",
" <td>2020-01-26</td>\n",
" <td>0.0</td>\n",
" <td>&lt;NA&gt;</td>\n",
" <td>0.0</td>\n",
" <td>Aruba</td>\n",
" <td>&lt;NA&gt;</td>\n",
" <td>0.0</td>\n",
" <td>...</td>\n",
" <td>0.0</td>\n",
" <td>0.0</td>\n",
" <td>0.0</td>\n",
" <td>&lt;NA&gt;</td>\n",
" <td>0.0</td>\n",
" <td>&lt;NA&gt;</td>\n",
" <td>&lt;NA&gt;</td>\n",
" <td>&lt;NA&gt;</td>\n",
" <td>&lt;NA&gt;</td>\n",
" <td>0.0</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",
" <td>...</td>\n",
" <td>...</td>\n",
" <td>...</td>\n",
" <td>...</td>\n",
" <td>...</td>\n",
" </tr>\n",
" <tr>\n",
" <th>247337</th>\n",
" <td>ZWE</td>\n",
" <td>-</td>\n",
" <td>-</td>\n",
" <td>2023-01-03</td>\n",
" <td>&lt;NA&gt;</td>\n",
" <td>259981.0</td>\n",
" <td>&lt;NA&gt;</td>\n",
" <td>Zimbabwe</td>\n",
" <td>5637.0</td>\n",
" <td>&lt;NA&gt;</td>\n",
" <td>...</td>\n",
" <td>&lt;NA&gt;</td>\n",
" <td>&lt;NA&gt;</td>\n",
" <td>&lt;NA&gt;</td>\n",
" <td>&lt;NA&gt;</td>\n",
" <td>&lt;NA&gt;</td>\n",
" <td>&lt;NA&gt;</td>\n",
" <td>&lt;NA&gt;</td>\n",
" <td>&lt;NA&gt;</td>\n",
" <td>&lt;NA&gt;</td>\n",
" <td>&lt;NA&gt;</td>\n",
" </tr>\n",
" <tr>\n",
" <th>247338</th>\n",
" <td>ZWE</td>\n",
" <td>-</td>\n",
" <td>-</td>\n",
" <td>2023-01-04</td>\n",
" <td>&lt;NA&gt;</td>\n",
" <td>259981.0</td>\n",
" <td>&lt;NA&gt;</td>\n",
" <td>Zimbabwe</td>\n",
" <td>5637.0</td>\n",
" <td>&lt;NA&gt;</td>\n",
" <td>...</td>\n",
" <td>&lt;NA&gt;</td>\n",
" <td>&lt;NA&gt;</td>\n",
" <td>&lt;NA&gt;</td>\n",
" <td>&lt;NA&gt;</td>\n",
" <td>&lt;NA&gt;</td>\n",
" <td>&lt;NA&gt;</td>\n",
" <td>&lt;NA&gt;</td>\n",
" <td>&lt;NA&gt;</td>\n",
" <td>&lt;NA&gt;</td>\n",
" <td>&lt;NA&gt;</td>\n",
" </tr>\n",
" <tr>\n",
" <th>247339</th>\n",
" <td>ZWE</td>\n",
" <td>-</td>\n",
" <td>-</td>\n",
" <td>2023-01-05</td>\n",
" <td>&lt;NA&gt;</td>\n",
" <td>259981.0</td>\n",
" <td>&lt;NA&gt;</td>\n",
" <td>Zimbabwe</td>\n",
" <td>5637.0</td>\n",
" <td>&lt;NA&gt;</td>\n",
" <td>...</td>\n",
" <td>&lt;NA&gt;</td>\n",
" <td>&lt;NA&gt;</td>\n",
" <td>&lt;NA&gt;</td>\n",
" <td>&lt;NA&gt;</td>\n",
" <td>&lt;NA&gt;</td>\n",
" <td>&lt;NA&gt;</td>\n",
" <td>&lt;NA&gt;</td>\n",
" <td>&lt;NA&gt;</td>\n",
" <td>&lt;NA&gt;</td>\n",
" <td>&lt;NA&gt;</td>\n",
" </tr>\n",
" <tr>\n",
" <th>247340</th>\n",
" <td>ZWE</td>\n",
" <td>-</td>\n",
" <td>-</td>\n",
" <td>2023-01-06</td>\n",
" <td>&lt;NA&gt;</td>\n",
" <td>259981.0</td>\n",
" <td>&lt;NA&gt;</td>\n",
" <td>Zimbabwe</td>\n",
" <td>5637.0</td>\n",
" <td>&lt;NA&gt;</td>\n",
" <td>...</td>\n",
" <td>&lt;NA&gt;</td>\n",
" <td>&lt;NA&gt;</td>\n",
" <td>&lt;NA&gt;</td>\n",
" <td>&lt;NA&gt;</td>\n",
" <td>&lt;NA&gt;</td>\n",
" <td>&lt;NA&gt;</td>\n",
" <td>&lt;NA&gt;</td>\n",
" <td>&lt;NA&gt;</td>\n",
" <td>&lt;NA&gt;</td>\n",
" <td>&lt;NA&gt;</td>\n",
" </tr>\n",
" <tr>\n",
" <th>247341</th>\n",
" <td>ZWE</td>\n",
" <td>-</td>\n",
" <td>-</td>\n",
" <td>2023-01-07</td>\n",
" <td>&lt;NA&gt;</td>\n",
" <td>259981.0</td>\n",
" <td>&lt;NA&gt;</td>\n",
" <td>Zimbabwe</td>\n",
" <td>5637.0</td>\n",
" <td>&lt;NA&gt;</td>\n",
" <td>...</td>\n",
" <td>&lt;NA&gt;</td>\n",
" <td>&lt;NA&gt;</td>\n",
" <td>&lt;NA&gt;</td>\n",
" <td>&lt;NA&gt;</td>\n",
" <td>&lt;NA&gt;</td>\n",
" <td>&lt;NA&gt;</td>\n",
" <td>&lt;NA&gt;</td>\n",
" <td>&lt;NA&gt;</td>\n",
" <td>&lt;NA&gt;</td>\n",
" <td>&lt;NA&gt;</td>\n",
" </tr>\n",
" </tbody>\n",
"</table>\n",
"<p>247342 rows × 33 columns</p>\n",
"</div>\n",
" <button class=\"colab-df-convert\" onclick=\"convertToInteractive('df-928b739b-cb15-4395-9269-28303cac5ef7')\"\n",
" title=\"Convert this dataframe to an interactive table.\"\n",
" style=\"display:none;\">\n",
" \n",
" <svg xmlns=\"http://www.w3.org/2000/svg\" height=\"24px\"viewBox=\"0 0 24 24\"\n",
" width=\"24px\">\n",
" <path d=\"M0 0h24v24H0V0z\" fill=\"none\"/>\n",
" <path d=\"M18.56 5.44l.94 2.06.94-2.06 2.06-.94-2.06-.94-.94-2.06-.94 2.06-2.06.94zm-11 1L8.5 8.5l.94-2.06 2.06-.94-2.06-.94L8.5 2.5l-.94 2.06-2.06.94zm10 10l.94 2.06.94-2.06 2.06-.94-2.06-.94-.94-2.06-.94 2.06-2.06.94z\"/><path d=\"M17.41 7.96l-1.37-1.37c-.4-.4-.92-.59-1.43-.59-.52 0-1.04.2-1.43.59L10.3 9.45l-7.72 7.72c-.78.78-.78 2.05 0 2.83L4 21.41c.39.39.9.59 1.41.59.51 0 1.02-.2 1.41-.59l7.78-7.78 2.81-2.81c.8-.78.8-2.07 0-2.86zM5.41 20L4 18.59l7.72-7.72 1.47 1.35L5.41 20z\"/>\n",
" </svg>\n",
" </button>\n",
" \n",
" <style>\n",
" .colab-df-container {\n",
" display:flex;\n",
" flex-wrap:wrap;\n",
" gap: 12px;\n",
" }\n",
"\n",
" .colab-df-convert {\n",
" background-color: #E8F0FE;\n",
" border: none;\n",
" border-radius: 50%;\n",
" cursor: pointer;\n",
" display: none;\n",
" fill: #1967D2;\n",
" height: 32px;\n",
" padding: 0 0 0 0;\n",
" width: 32px;\n",
" }\n",
"\n",
" .colab-df-convert:hover {\n",
" background-color: #E2EBFA;\n",
" box-shadow: 0px 1px 2px rgba(60, 64, 67, 0.3), 0px 1px 3px 1px rgba(60, 64, 67, 0.15);\n",
" fill: #174EA6;\n",
" }\n",
"\n",
" [theme=dark] .colab-df-convert {\n",
" background-color: #3B4455;\n",
" fill: #D2E3FC;\n",
" }\n",
"\n",
" [theme=dark] .colab-df-convert:hover {\n",
" background-color: #434B5C;\n",
" box-shadow: 0px 1px 3px 1px rgba(0, 0, 0, 0.15);\n",
" filter: drop-shadow(0px 1px 2px rgba(0, 0, 0, 0.3));\n",
" fill: #FFFFFF;\n",
" }\n",
" </style>\n",
"\n",
" <script>\n",
" const buttonEl =\n",
" document.querySelector('#df-928b739b-cb15-4395-9269-28303cac5ef7 button.colab-df-convert');\n",
" buttonEl.style.display =\n",
" google.colab.kernel.accessAllowed ? 'block' : 'none';\n",
"\n",
" async function convertToInteractive(key) {\n",
" const element = document.querySelector('#df-928b739b-cb15-4395-9269-28303cac5ef7');\n",
" const dataTable =\n",
" await google.colab.kernel.invokeFunction('convertToInteractive',\n",
" [key], {});\n",
" if (!dataTable) return;\n",
"\n",
" const docLinkHtml = 'Like what you see? Visit the ' +\n",
" '<a target=\"_blank\" href=https://colab.research.google.com/notebooks/data_table.ipynb>data table notebook</a>'\n",
" + ' to learn more about interactive tables.';\n",
" element.innerHTML = '';\n",
" dataTable['output_type'] = 'display_data';\n",
" await google.colab.output.renderOutput(dataTable, element);\n",
" const docLink = document.createElement('div');\n",
" docLink.innerHTML = docLinkHtml;\n",
" element.appendChild(docLink);\n",
" }\n",
" </script>\n",
" </div>\n",
" </div>\n",
" "
]
},
"metadata": {},
"execution_count": 2
}
]
},
{
"cell_type": "code",
"source": [
"cs.__version__"
],
"metadata": {
"colab": {
"base_uri": "https://localhost:8080/",
"height": 35
},
"id": "cxwo2RPBXXM4",
"outputId": "8e9eb888-aacb-421a-c46d-62243a92f7cf"
},
"execution_count": 3,
"outputs": [
{
"output_type": "execute_result",
"data": {
"text/plain": [
"'2.28.0'"
],
"application/vnd.google.colaboratory.intrinsic+json": {
"type": "string"
}
},
"metadata": {},
"execution_count": 3
}
]
},
{
"cell_type": "code",
"source": [
"!python --version"
],
"metadata": {
"colab": {
"base_uri": "https://localhost:8080/"
},
"id": "s1Irqd2JXZID",
"outputId": "3860a82d-202d-40ff-cd8a-0d02aca1c2e3"
},
"execution_count": 4,
"outputs": [
{
"output_type": "stream",
"name": "stdout",
"text": [
"Python 3.8.16\n"
]
}
]
},
{
"cell_type": "code",
"source": [],
"metadata": {
"id": "cMSbWZl5Y21p"
},
"execution_count": null,
"outputs": []
}
]
}
Sign up for free to join this conversation on GitHub. Already have an account? Sign in to comment