diff --git a/.renku/workflow/24f649b76cd94bb081e327b6200fc2de_papermill.cwl b/.renku/workflow/24f649b76cd94bb081e327b6200fc2de_papermill.cwl
new file mode 100644
index 0000000000000000000000000000000000000000..473061c8f64291e29744b69b762ab9d9666bc55d
--- /dev/null
+++ b/.renku/workflow/24f649b76cd94bb081e327b6200fc2de_papermill.cwl
@@ -0,0 +1,137 @@
+arguments: []
+baseCommand:
+- papermill
+class: CommandLineTool
+cwlVersion: v1.0
+hints: []
+inputs:
+ input_1:
+ default: ts_folder
+ inputBinding:
+ position: 1
+ prefix: -p
+ separate: true
+ shellQuote: true
+ streamable: false
+ type: string
+ input_10:
+ default: runs/ToRates.run.ipynb
+ inputBinding:
+ position: 10
+ separate: true
+ shellQuote: true
+ streamable: false
+ type: string
+ input_2:
+ default:
+ class: Directory
+ listing: []
+ path: ../../data/covid-19_jhu-csse
+ inputBinding:
+ position: 2
+ separate: true
+ shellQuote: true
+ streamable: false
+ type: Directory
+ input_3:
+ default: wb_path
+ inputBinding:
+ position: 3
+ prefix: -p
+ separate: true
+ shellQuote: true
+ streamable: false
+ type: string
+ input_4:
+ default:
+ class: File
+ path: ../../data/atlas/worldbank/SP.POP.TOTL.zip
+ inputBinding:
+ position: 4
+ separate: true
+ shellQuote: true
+ streamable: false
+ type: File
+ input_5:
+ default: geodata_path
+ inputBinding:
+ position: 5
+ prefix: -p
+ separate: true
+ shellQuote: true
+ streamable: false
+ type: string
+ input_6:
+ default:
+ class: File
+ path: ../../data/geodata/geo_data.csv
+ inputBinding:
+ position: 6
+ separate: true
+ shellQuote: true
+ streamable: false
+ type: File
+ input_7:
+ default: out_folder
+ inputBinding:
+ position: 7
+ prefix: -p
+ separate: true
+ shellQuote: true
+ streamable: false
+ type: string
+ input_8:
+ default: data/covid-19_rates
+ inputBinding:
+ position: 8
+ separate: true
+ shellQuote: true
+ streamable: false
+ type: string
+ input_9:
+ default:
+ class: File
+ path: ../../notebooks/process/ToRates.ipynb
+ inputBinding:
+ position: 9
+ prefix: --inject-paths
+ separate: true
+ shellQuote: true
+ streamable: false
+ type: File
+outputs:
+ output_0:
+ outputBinding:
+ glob: $(inputs.input_10)
+ 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: data/covid-19_rates
+ writable: true
+ - entry: $(inputs.input_2)
+ entryname: data/covid-19_jhu-csse
+ writable: false
+ - entry: $(inputs.input_4)
+ entryname: data/atlas/worldbank/SP.POP.TOTL.zip
+ writable: false
+ - entry: $(inputs.input_6)
+ entryname: data/geodata/geo_data.csv
+ writable: false
+ - entry: $(inputs.input_9)
+ entryname: notebooks/process/ToRates.ipynb
+ writable: false
+successCodes: []
+temporaryFailCodes: []
diff --git a/data/covid-19_rates/ts_rates_19-covid-confirmed.csv b/data/covid-19_rates/ts_rates_19-covid-confirmed.csv
index 762ea359b31e29d5dcde3c6b1bac20286f2089d5..de75c94bf0d92beeba4da5fb695988bd01674a5e 100644
--- a/data/covid-19_rates/ts_rates_19-covid-confirmed.csv
+++ b/data/covid-19_rates/ts_rates_19-covid-confirmed.csv
@@ -1,3 +1,3 @@
version https://git-lfs.github.com/spec/v1
-oid sha256:0a3ea2e24d3c73306ecb7a2c20b6f958f47dea9f61d31a60d27470f82b9bc32b
-size 151413
+oid sha256:ef8b634fff8d332792b7aa71d294740e6c6deeab58e79e118bca0e403b9efdfd
+size 154716
diff --git a/data/covid-19_rates/ts_rates_19-covid-deaths.csv b/data/covid-19_rates/ts_rates_19-covid-deaths.csv
index b4c13fde616f5a01784f0d3929c4a16a114e426f..4924f102980bf668ad90bd7fc815595f44f43a39 100644
--- a/data/covid-19_rates/ts_rates_19-covid-deaths.csv
+++ b/data/covid-19_rates/ts_rates_19-covid-deaths.csv
@@ -1,3 +1,3 @@
version https://git-lfs.github.com/spec/v1
-oid sha256:10d4336230364ed22641a40a476f4400d5b3bfc0c32bc035bd6e8da6d1790c20
-size 100359
+oid sha256:60a5fb3f15af1d6d1c2e9206b8c65dab140876f02ff3586ad98d0571378329da
+size 103289
diff --git a/runs/ToRates.run.ipynb b/runs/ToRates.run.ipynb
index 0cd0d9b5982bcfa2279313a4d246a8c1da42403b..f4d14418e8f1cebc32bc2a9829ccaf35f73f02ce 100644
--- a/runs/ToRates.run.ipynb
+++ b/runs/ToRates.run.ipynb
@@ -4,10 +4,10 @@
"cell_type": "markdown",
"metadata": {
"papermill": {
- "duration": 0.017012,
- "end_time": "2020-04-07T07:26:23.790565",
+ "duration": 0.02726,
+ "end_time": "2020-04-09T05:00:38.273676",
"exception": false,
- "start_time": "2020-04-07T07:26:23.773553",
+ "start_time": "2020-04-09T05:00:38.246416",
"status": "completed"
},
"tags": []
@@ -21,10 +21,10 @@
"execution_count": 1,
"metadata": {
"papermill": {
- "duration": 0.296352,
- "end_time": "2020-04-07T07:26:24.099650",
+ "duration": 0.373082,
+ "end_time": "2020-04-09T05:00:38.659078",
"exception": false,
- "start_time": "2020-04-07T07:26:23.803298",
+ "start_time": "2020-04-09T05:00:38.285996",
"status": "completed"
},
"tags": []
@@ -40,10 +40,10 @@
"execution_count": 2,
"metadata": {
"papermill": {
- "duration": 0.023758,
- "end_time": "2020-04-07T07:26:24.140475",
+ "duration": 0.027823,
+ "end_time": "2020-04-09T05:00:38.706532",
"exception": false,
- "start_time": "2020-04-07T07:26:24.116717",
+ "start_time": "2020-04-09T05:00:38.678709",
"status": "completed"
},
"tags": [
@@ -53,7 +53,7 @@
"outputs": [],
"source": [
"ts_folder = \"../../data/covid-19_jhu-csse/\"\n",
- "wb_path = \"../../data/worldbank/SP.POP.TOTL.zip\"\n",
+ "wb_path = \"../../data/atlas/worldbank/SP.POP.TOTL.zip\"\n",
"geodata_path = \"../../data/geodata/geo_data.csv\"\n",
"out_folder = None\n",
"PAPERMILL_OUTPUT_PATH = None"
@@ -64,10 +64,10 @@
"execution_count": 3,
"metadata": {
"papermill": {
- "duration": 0.02264,
- "end_time": "2020-04-07T07:26:24.177456",
+ "duration": 0.030505,
+ "end_time": "2020-04-09T05:00:38.750544",
"exception": false,
- "start_time": "2020-04-07T07:26:24.154816",
+ "start_time": "2020-04-09T05:00:38.720039",
"status": "completed"
},
"tags": [
@@ -77,22 +77,22 @@
"outputs": [],
"source": [
"# Parameters\n",
- "PAPERMILL_INPUT_PATH = \"/tmp/o7ht8_17/notebooks/process/ToRates.ipynb\"\n",
+ "PAPERMILL_INPUT_PATH = \"notebooks/process/ToRates.ipynb\"\n",
"PAPERMILL_OUTPUT_PATH = \"runs/ToRates.run.ipynb\"\n",
- "ts_folder = \"/tmp/o7ht8_17/data/covid-19_jhu-csse\"\n",
- "wb_path = \"/tmp/o7ht8_17/data/worldbank/SP.POP.TOTL.zip\"\n",
- "geodata_path = \"/tmp/o7ht8_17/data/geodata/geo_data.csv\"\n",
- "out_folder = \"data/covid-19_rates\"\n"
+ "ts_folder = \"./data/covid-19_jhu-csse/\"\n",
+ "wb_path = \"./data/atlas/worldbank/SP.POP.TOTL.zip\"\n",
+ "geodata_path = \"./data/geodata/geo_data.csv\"\n",
+ "out_folder = \"./data/covid-19_rates/\"\n"
]
},
{
"cell_type": "markdown",
"metadata": {
"papermill": {
- "duration": 0.013275,
- "end_time": "2020-04-07T07:26:24.205204",
+ "duration": 0.010526,
+ "end_time": "2020-04-09T05:00:38.775129",
"exception": false,
- "start_time": "2020-04-07T07:26:24.191929",
+ "start_time": "2020-04-09T05:00:38.764603",
"status": "completed"
},
"tags": [
@@ -110,10 +110,10 @@
"execution_count": 4,
"metadata": {
"papermill": {
- "duration": 0.02493,
- "end_time": "2020-04-07T07:26:24.242506",
+ "duration": 0.034297,
+ "end_time": "2020-04-09T05:00:38.820899",
"exception": false,
- "start_time": "2020-04-07T07:26:24.217576",
+ "start_time": "2020-04-09T05:00:38.786602",
"status": "completed"
},
"tags": []
@@ -135,10 +135,10 @@
"execution_count": 5,
"metadata": {
"papermill": {
- "duration": 0.140184,
- "end_time": "2020-04-07T07:26:24.395550",
+ "duration": 0.114622,
+ "end_time": "2020-04-09T05:00:38.951454",
"exception": false,
- "start_time": "2020-04-07T07:26:24.255366",
+ "start_time": "2020-04-09T05:00:38.836832",
"status": "completed"
},
"tags": []
@@ -155,10 +155,10 @@
"cell_type": "markdown",
"metadata": {
"papermill": {
- "duration": 0.012225,
- "end_time": "2020-04-07T07:26:24.420637",
+ "duration": 0.011673,
+ "end_time": "2020-04-09T05:00:38.983837",
"exception": false,
- "start_time": "2020-04-07T07:26:24.408412",
+ "start_time": "2020-04-09T05:00:38.972164",
"status": "completed"
},
"tags": []
@@ -172,10 +172,10 @@
"execution_count": 6,
"metadata": {
"papermill": {
- "duration": 0.07793,
- "end_time": "2020-04-07T07:26:24.510919",
+ "duration": 0.047924,
+ "end_time": "2020-04-09T05:00:39.042023",
"exception": false,
- "start_time": "2020-04-07T07:26:24.432989",
+ "start_time": "2020-04-09T05:00:38.994099",
"status": "completed"
},
"tags": []
@@ -191,10 +191,10 @@
"cell_type": "markdown",
"metadata": {
"papermill": {
- "duration": 0.012674,
- "end_time": "2020-04-07T07:26:24.537326",
+ "duration": 0.01031,
+ "end_time": "2020-04-09T05:00:39.069203",
"exception": false,
- "start_time": "2020-04-07T07:26:24.524652",
+ "start_time": "2020-04-09T05:00:39.058893",
"status": "completed"
},
"tags": []
@@ -208,10 +208,10 @@
"execution_count": 7,
"metadata": {
"papermill": {
- "duration": 0.059408,
- "end_time": "2020-04-07T07:26:24.609279",
+ "duration": 0.072257,
+ "end_time": "2020-04-09T05:00:39.152334",
"exception": false,
- "start_time": "2020-04-07T07:26:24.549871",
+ "start_time": "2020-04-09T05:00:39.080077",
"status": "completed"
},
"tags": []
@@ -344,10 +344,10 @@
"cell_type": "markdown",
"metadata": {
"papermill": {
- "duration": 0.012869,
- "end_time": "2020-04-07T07:26:24.635680",
+ "duration": 0.011511,
+ "end_time": "2020-04-09T05:00:39.184287",
"exception": false,
- "start_time": "2020-04-07T07:26:24.622811",
+ "start_time": "2020-04-09T05:00:39.172776",
"status": "completed"
},
"tags": []
@@ -361,10 +361,10 @@
"execution_count": 8,
"metadata": {
"papermill": {
- "duration": 0.031272,
- "end_time": "2020-04-07T07:26:24.680185",
+ "duration": 0.04807,
+ "end_time": "2020-04-09T05:00:39.243326",
"exception": false,
- "start_time": "2020-04-07T07:26:24.648913",
+ "start_time": "2020-04-09T05:00:39.195256",
"status": "completed"
},
"tags": []
@@ -393,10 +393,10 @@
"execution_count": 9,
"metadata": {
"papermill": {
- "duration": 0.021441,
- "end_time": "2020-04-07T07:26:24.714729",
+ "duration": 0.025839,
+ "end_time": "2020-04-09T05:00:39.290082",
"exception": false,
- "start_time": "2020-04-07T07:26:24.693288",
+ "start_time": "2020-04-09T05:00:39.264243",
"status": "completed"
},
"tags": []
@@ -411,10 +411,10 @@
"cell_type": "markdown",
"metadata": {
"papermill": {
- "duration": 0.013002,
- "end_time": "2020-04-07T07:26:24.742466",
+ "duration": 0.01093,
+ "end_time": "2020-04-09T05:00:39.314581",
"exception": false,
- "start_time": "2020-04-07T07:26:24.729464",
+ "start_time": "2020-04-09T05:00:39.303651",
"status": "completed"
},
"tags": []
@@ -428,10 +428,10 @@
"execution_count": 10,
"metadata": {
"papermill": {
- "duration": 0.038013,
- "end_time": "2020-04-07T07:26:24.793563",
+ "duration": 0.058977,
+ "end_time": "2020-04-09T05:00:39.384626",
"exception": false,
- "start_time": "2020-04-07T07:26:24.755550",
+ "start_time": "2020-04-09T05:00:39.325649",
"status": "completed"
},
"tags": []
@@ -460,8 +460,8 @@
" <th></th>\n",
" <th></th>\n",
" <th></th>\n",
- " <th>2020-04-05 00:00:00</th>\n",
" <th>2020-04-06 00:00:00</th>\n",
+ " <th>2020-04-07 00:00:00</th>\n",
" </tr>\n",
" <tr>\n",
" <th>Country/Region</th>\n",
@@ -476,14 +476,14 @@
" <th>Bahamas</th>\n",
" <th>-77.396300</th>\n",
" <th>25.034300</th>\n",
- " <td>28</td>\n",
" <td>29</td>\n",
+ " <td>33</td>\n",
" </tr>\n",
" <tr>\n",
" <th>Burma</th>\n",
" <th>95.956000</th>\n",
" <th>21.916200</th>\n",
- " <td>21</td>\n",
+ " <td>22</td>\n",
" <td>22</td>\n",
" </tr>\n",
" <tr>\n",
@@ -497,8 +497,8 @@
" <th>Congo (Kinshasa)</th>\n",
" <th>21.758700</th>\n",
" <th>-4.038300</th>\n",
- " <td>154</td>\n",
" <td>161</td>\n",
+ " <td>180</td>\n",
" </tr>\n",
" <tr>\n",
" <th>Diamond Princess</th>\n",
@@ -525,15 +525,15 @@
" <th>Kyrgyzstan</th>\n",
" <th>74.766100</th>\n",
" <th>41.204400</th>\n",
- " <td>147</td>\n",
" <td>216</td>\n",
+ " <td>228</td>\n",
" </tr>\n",
" <tr>\n",
" <th>Laos</th>\n",
" <th>102.495496</th>\n",
" <th>19.856270</th>\n",
- " <td>11</td>\n",
" <td>12</td>\n",
+ " <td>14</td>\n",
" </tr>\n",
" <tr>\n",
" <th>MS Zaandam</th>\n",
@@ -547,7 +547,7 @@
" <th>-62.782998</th>\n",
" <th>17.357822</th>\n",
" <td>10</td>\n",
- " <td>10</td>\n",
+ " <td>11</td>\n",
" </tr>\n",
" <tr>\n",
" <th>Saint Lucia</th>\n",
@@ -561,7 +561,7 @@
" <th>-61.287200</th>\n",
" <th>12.984300</th>\n",
" <td>7</td>\n",
- " <td>7</td>\n",
+ " <td>8</td>\n",
" </tr>\n",
" <tr>\n",
" <th>Syria</th>\n",
@@ -574,14 +574,14 @@
" <th>Taiwan*</th>\n",
" <th>121.000000</th>\n",
" <th>23.700000</th>\n",
- " <td>363</td>\n",
" <td>373</td>\n",
+ " <td>376</td>\n",
" </tr>\n",
" <tr>\n",
" <th>Venezuela</th>\n",
" <th>-66.589700</th>\n",
" <th>6.423800</th>\n",
- " <td>159</td>\n",
+ " <td>165</td>\n",
" <td>165</td>\n",
" </tr>\n",
" <tr>\n",
@@ -596,43 +596,43 @@
"</div>"
],
"text/plain": [
- " 2020-04-05 00:00:00 \\\n",
+ " 2020-04-06 00:00:00 \\\n",
"Country/Region Long Lat \n",
- "Bahamas -77.396300 25.034300 28 \n",
- "Burma 95.956000 21.916200 21 \n",
+ "Bahamas -77.396300 25.034300 29 \n",
+ "Burma 95.956000 21.916200 22 \n",
"Congo (Brazzaville) 21.758700 -4.038300 45 \n",
- "Congo (Kinshasa) 21.758700 -4.038300 154 \n",
+ "Congo (Kinshasa) 21.758700 -4.038300 161 \n",
"Diamond Princess 0.000000 0.000000 712 \n",
"Gambia -15.310100 13.443200 4 \n",
"Holy See 12.453400 41.902900 7 \n",
- "Kyrgyzstan 74.766100 41.204400 147 \n",
- "Laos 102.495496 19.856270 11 \n",
+ "Kyrgyzstan 74.766100 41.204400 216 \n",
+ "Laos 102.495496 19.856270 12 \n",
"MS Zaandam 0.000000 0.000000 9 \n",
"Saint Kitts and Nevis -62.782998 17.357822 10 \n",
"Saint Lucia -60.978900 13.909400 14 \n",
"Saint Vincent and the Grenadines -61.287200 12.984300 7 \n",
"Syria 38.996815 34.802075 19 \n",
- "Taiwan* 121.000000 23.700000 363 \n",
- "Venezuela -66.589700 6.423800 159 \n",
+ "Taiwan* 121.000000 23.700000 373 \n",
+ "Venezuela -66.589700 6.423800 165 \n",
"Western Sahara -12.885800 24.215500 4 \n",
"\n",
- " 2020-04-06 00:00:00 \n",
+ " 2020-04-07 00:00:00 \n",
"Country/Region Long Lat \n",
- "Bahamas -77.396300 25.034300 29 \n",
+ "Bahamas -77.396300 25.034300 33 \n",
"Burma 95.956000 21.916200 22 \n",
"Congo (Brazzaville) 21.758700 -4.038300 45 \n",
- "Congo (Kinshasa) 21.758700 -4.038300 161 \n",
+ "Congo (Kinshasa) 21.758700 -4.038300 180 \n",
"Diamond Princess 0.000000 0.000000 712 \n",
"Gambia -15.310100 13.443200 4 \n",
"Holy See 12.453400 41.902900 7 \n",
- "Kyrgyzstan 74.766100 41.204400 216 \n",
- "Laos 102.495496 19.856270 12 \n",
+ "Kyrgyzstan 74.766100 41.204400 228 \n",
+ "Laos 102.495496 19.856270 14 \n",
"MS Zaandam 0.000000 0.000000 9 \n",
- "Saint Kitts and Nevis -62.782998 17.357822 10 \n",
+ "Saint Kitts and Nevis -62.782998 17.357822 11 \n",
"Saint Lucia -60.978900 13.909400 14 \n",
- "Saint Vincent and the Grenadines -61.287200 12.984300 7 \n",
+ "Saint Vincent and the Grenadines -61.287200 12.984300 8 \n",
"Syria 38.996815 34.802075 19 \n",
- "Taiwan* 121.000000 23.700000 373 \n",
+ "Taiwan* 121.000000 23.700000 376 \n",
"Venezuela -66.589700 6.423800 165 \n",
"Western Sahara -12.885800 24.215500 4 "
]
@@ -652,10 +652,10 @@
"cell_type": "markdown",
"metadata": {
"papermill": {
- "duration": 0.013688,
- "end_time": "2020-04-07T07:26:24.822695",
+ "duration": 0.01194,
+ "end_time": "2020-04-09T05:00:39.418251",
"exception": false,
- "start_time": "2020-04-07T07:26:24.809007",
+ "start_time": "2020-04-09T05:00:39.406311",
"status": "completed"
},
"tags": []
@@ -669,10 +669,10 @@
"execution_count": 11,
"metadata": {
"papermill": {
- "duration": 0.030357,
- "end_time": "2020-04-07T07:26:24.866561",
+ "duration": 0.04001,
+ "end_time": "2020-04-09T05:00:39.469552",
"exception": false,
- "start_time": "2020-04-07T07:26:24.836204",
+ "start_time": "2020-04-09T05:00:39.429542",
"status": "completed"
},
"tags": []
@@ -686,10 +686,10 @@
"cell_type": "markdown",
"metadata": {
"papermill": {
- "duration": 0.013462,
- "end_time": "2020-04-07T07:26:24.893963",
+ "duration": 0.012892,
+ "end_time": "2020-04-09T05:00:39.505711",
"exception": false,
- "start_time": "2020-04-07T07:26:24.880501",
+ "start_time": "2020-04-09T05:00:39.492819",
"status": "completed"
},
"tags": []
@@ -703,10 +703,10 @@
"execution_count": 12,
"metadata": {
"papermill": {
- "duration": 0.049958,
- "end_time": "2020-04-07T07:26:24.957693",
+ "duration": 0.072541,
+ "end_time": "2020-04-09T05:00:39.590213",
"exception": false,
- "start_time": "2020-04-07T07:26:24.907735",
+ "start_time": "2020-04-09T05:00:39.517672",
"status": "completed"
},
"tags": []
@@ -735,6 +735,7 @@
" <th></th>\n",
" <th>name</th>\n",
" <th>name_long</th>\n",
+ " <th>sov_a3</th>\n",
" <th>region_un</th>\n",
" <th>subregion</th>\n",
" <th>region_wb</th>\n",
@@ -756,6 +757,7 @@
" <th></th>\n",
" <th></th>\n",
" <th></th>\n",
+ " <th></th>\n",
" </tr>\n",
" </thead>\n",
" <tbody>\n",
@@ -763,6 +765,7 @@
" <th>Bahamas</th>\n",
" <td>Bahamas</td>\n",
" <td>Bahamas</td>\n",
+ " <td>BHS</td>\n",
" <td>Americas</td>\n",
" <td>Caribbean</td>\n",
" <td>Latin America & Caribbean</td>\n",
@@ -776,6 +779,7 @@
" <th>Kyrgyzstan</th>\n",
" <td>Kyrgyzstan</td>\n",
" <td>Kyrgyzstan</td>\n",
+ " <td>KGZ</td>\n",
" <td>Asia</td>\n",
" <td>Central Asia</td>\n",
" <td>Europe & Central Asia</td>\n",
@@ -789,6 +793,7 @@
" <th>Saint Kitts and Nevis</th>\n",
" <td>St. Kitts and Nevis</td>\n",
" <td>Saint Kitts and Nevis</td>\n",
+ " <td>KNA</td>\n",
" <td>Americas</td>\n",
" <td>Caribbean</td>\n",
" <td>Latin America & Caribbean</td>\n",
@@ -802,6 +807,7 @@
" <th>Saint Lucia</th>\n",
" <td>Saint Lucia</td>\n",
" <td>Saint Lucia</td>\n",
+ " <td>LCA</td>\n",
" <td>Americas</td>\n",
" <td>Caribbean</td>\n",
" <td>Latin America & Caribbean</td>\n",
@@ -815,6 +821,7 @@
" <th>Western Sahara</th>\n",
" <td>W. Sahara</td>\n",
" <td>Western Sahara</td>\n",
+ " <td>SAH</td>\n",
" <td>Africa</td>\n",
" <td>Northern Africa</td>\n",
" <td>Middle East & North Africa</td>\n",
@@ -828,6 +835,7 @@
" <th>Syria</th>\n",
" <td>Syria</td>\n",
" <td>Syria</td>\n",
+ " <td>SYR</td>\n",
" <td>Asia</td>\n",
" <td>Western Asia</td>\n",
" <td>Middle East & North Africa</td>\n",
@@ -841,6 +849,7 @@
" <th>Taiwan*</th>\n",
" <td>Taiwan</td>\n",
" <td>Taiwan</td>\n",
+ " <td>TWN</td>\n",
" <td>Asia</td>\n",
" <td>Eastern Asia</td>\n",
" <td>East Asia & Pacific</td>\n",
@@ -854,6 +863,7 @@
" <th>Saint Vincent and the Grenadines</th>\n",
" <td>St. Vin. and Gren.</td>\n",
" <td>Saint Vincent and the Grenadines</td>\n",
+ " <td>VCT</td>\n",
" <td>Americas</td>\n",
" <td>Caribbean</td>\n",
" <td>Latin America & Caribbean</td>\n",
@@ -867,6 +877,7 @@
" <th>Venezuela</th>\n",
" <td>Venezuela</td>\n",
" <td>Venezuela</td>\n",
+ " <td>VEN</td>\n",
" <td>Americas</td>\n",
" <td>South America</td>\n",
" <td>Latin America & Caribbean</td>\n",
@@ -893,65 +904,65 @@
"Saint Vincent and the Grenadines St. Vin. and Gren. \n",
"Venezuela Venezuela \n",
"\n",
- " name_long region_un \\\n",
- "name_jhu \n",
- "Bahamas Bahamas Americas \n",
- "Kyrgyzstan Kyrgyzstan Asia \n",
- "Saint Kitts and Nevis Saint Kitts and Nevis Americas \n",
- "Saint Lucia Saint Lucia Americas \n",
- "Western Sahara Western Sahara Africa \n",
- "Syria Syria Asia \n",
- "Taiwan* Taiwan Asia \n",
- "Saint Vincent and the Grenadines Saint Vincent and the Grenadines Americas \n",
- "Venezuela Venezuela Americas \n",
+ " name_long sov_a3 \\\n",
+ "name_jhu \n",
+ "Bahamas Bahamas BHS \n",
+ "Kyrgyzstan Kyrgyzstan KGZ \n",
+ "Saint Kitts and Nevis Saint Kitts and Nevis KNA \n",
+ "Saint Lucia Saint Lucia LCA \n",
+ "Western Sahara Western Sahara SAH \n",
+ "Syria Syria SYR \n",
+ "Taiwan* Taiwan TWN \n",
+ "Saint Vincent and the Grenadines Saint Vincent and the Grenadines VCT \n",
+ "Venezuela Venezuela VEN \n",
"\n",
- " subregion region_wb \\\n",
- "name_jhu \n",
- "Bahamas Caribbean Latin America & Caribbean \n",
- "Kyrgyzstan Central Asia Europe & Central Asia \n",
- "Saint Kitts and Nevis Caribbean Latin America & Caribbean \n",
- "Saint Lucia Caribbean Latin America & Caribbean \n",
- "Western Sahara Northern Africa Middle East & North Africa \n",
- "Syria Western Asia Middle East & North Africa \n",
- "Taiwan* Eastern Asia East Asia & Pacific \n",
- "Saint Vincent and the Grenadines Caribbean Latin America & Caribbean \n",
- "Venezuela South America Latin America & Caribbean \n",
+ " region_un subregion \\\n",
+ "name_jhu \n",
+ "Bahamas Americas Caribbean \n",
+ "Kyrgyzstan Asia Central Asia \n",
+ "Saint Kitts and Nevis Americas Caribbean \n",
+ "Saint Lucia Americas Caribbean \n",
+ "Western Sahara Africa Northern Africa \n",
+ "Syria Asia Western Asia \n",
+ "Taiwan* Asia Eastern Asia \n",
+ "Saint Vincent and the Grenadines Americas Caribbean \n",
+ "Venezuela Americas South America \n",
"\n",
- " pop_est gdp_md_est \\\n",
- "name_jhu \n",
- "Bahamas 309156 9093.0 \n",
- "Kyrgyzstan 5431747 11610.0 \n",
- "Saint Kitts and Nevis 40131 777.7 \n",
- "Saint Lucia 160267 1778.0 \n",
- "Western Sahara -99 -99.0 \n",
- "Syria 20178485 98830.0 \n",
- "Taiwan* 22974347 712000.0 \n",
- "Saint Vincent and the Grenadines 104574 1070.0 \n",
- "Venezuela 26814843 357400.0 \n",
+ " region_wb pop_est \\\n",
+ "name_jhu \n",
+ "Bahamas Latin America & Caribbean 309156 \n",
+ "Kyrgyzstan Europe & Central Asia 5431747 \n",
+ "Saint Kitts and Nevis Latin America & Caribbean 40131 \n",
+ "Saint Lucia Latin America & Caribbean 160267 \n",
+ "Western Sahara Middle East & North Africa -99 \n",
+ "Syria Middle East & North Africa 20178485 \n",
+ "Taiwan* East Asia & Pacific 22974347 \n",
+ "Saint Vincent and the Grenadines Latin America & Caribbean 104574 \n",
+ "Venezuela Latin America & Caribbean 26814843 \n",
"\n",
- " income_grp Longitude \\\n",
+ " gdp_md_est income_grp \\\n",
"name_jhu \n",
- "Bahamas 2. High income: nonOECD -76.628430 \n",
- "Kyrgyzstan 5. Low income 74.541655 \n",
- "Saint Kitts and Nevis 2. High income: nonOECD -62.687553 \n",
- "Saint Lucia 3. Upper middle income -60.969699 \n",
- "Western Sahara 5. Low income -12.219828 \n",
- "Syria 4. Lower middle income 38.507882 \n",
- "Taiwan* 2. High income: nonOECD 120.954273 \n",
- "Saint Vincent and the Grenadines 3. Upper middle income -61.201297 \n",
- "Venezuela 3. Upper middle income -66.181841 \n",
+ "Bahamas 9093.0 2. High income: nonOECD \n",
+ "Kyrgyzstan 11610.0 5. Low income \n",
+ "Saint Kitts and Nevis 777.7 2. High income: nonOECD \n",
+ "Saint Lucia 1778.0 3. Upper middle income \n",
+ "Western Sahara -99.0 5. Low income \n",
+ "Syria 98830.0 4. Lower middle income \n",
+ "Taiwan* 712000.0 2. High income: nonOECD \n",
+ "Saint Vincent and the Grenadines 1070.0 3. Upper middle income \n",
+ "Venezuela 357400.0 3. Upper middle income \n",
"\n",
- " Latitude \n",
- "name_jhu \n",
- "Bahamas 24.290367 \n",
- "Kyrgyzstan 41.462219 \n",
- "Saint Kitts and Nevis 17.264599 \n",
- "Saint Lucia 13.894795 \n",
- "Western Sahara 24.229567 \n",
- "Syria 35.025474 \n",
- "Taiwan* 23.753993 \n",
- "Saint Vincent and the Grenadines 13.224723 \n",
- "Venezuela 7.124224 "
+ " Longitude Latitude \n",
+ "name_jhu \n",
+ "Bahamas -76.628430 24.290367 \n",
+ "Kyrgyzstan 74.541655 41.462219 \n",
+ "Saint Kitts and Nevis -62.687553 17.264599 \n",
+ "Saint Lucia -60.969699 13.894795 \n",
+ "Western Sahara -12.219828 24.229567 \n",
+ "Syria 38.507882 35.025474 \n",
+ "Taiwan* 120.954273 23.753993 \n",
+ "Saint Vincent and the Grenadines -61.201297 13.224723 \n",
+ "Venezuela -66.181841 7.124224 "
]
},
"metadata": {},
@@ -972,10 +983,10 @@
"cell_type": "markdown",
"metadata": {
"papermill": {
- "duration": 0.01429,
- "end_time": "2020-04-07T07:26:24.987432",
+ "duration": 0.01225,
+ "end_time": "2020-04-09T05:00:39.623449",
"exception": false,
- "start_time": "2020-04-07T07:26:24.973142",
+ "start_time": "2020-04-09T05:00:39.611199",
"status": "completed"
},
"tags": []
@@ -989,10 +1000,10 @@
"execution_count": 13,
"metadata": {
"papermill": {
- "duration": 0.038975,
- "end_time": "2020-04-07T07:26:25.041155",
+ "duration": 0.051992,
+ "end_time": "2020-04-09T05:00:39.687185",
"exception": false,
- "start_time": "2020-04-07T07:26:25.002180",
+ "start_time": "2020-04-09T05:00:39.635193",
"status": "completed"
},
"tags": []
@@ -1017,10 +1028,10 @@
"execution_count": 14,
"metadata": {
"papermill": {
- "duration": 0.119428,
- "end_time": "2020-04-07T07:26:25.175277",
+ "duration": 0.082263,
+ "end_time": "2020-04-09T05:00:39.790829",
"exception": false,
- "start_time": "2020-04-07T07:26:25.055849",
+ "start_time": "2020-04-09T05:00:39.708566",
"status": "completed"
},
"tags": []
@@ -1053,21 +1064,21 @@
"version": "3.7.3"
},
"papermill": {
- "duration": 2.579772,
- "end_time": "2020-04-07T07:26:25.515177",
+ "duration": 2.769091,
+ "end_time": "2020-04-09T05:00:40.129241",
"environment_variables": {},
"exception": null,
- "input_path": "/tmp/o7ht8_17/notebooks/process/ToRates.ipynb",
+ "input_path": "notebooks/process/ToRates.ipynb",
"output_path": "runs/ToRates.run.ipynb",
"parameters": {
- "PAPERMILL_INPUT_PATH": "/tmp/o7ht8_17/notebooks/process/ToRates.ipynb",
+ "PAPERMILL_INPUT_PATH": "notebooks/process/ToRates.ipynb",
"PAPERMILL_OUTPUT_PATH": "runs/ToRates.run.ipynb",
- "geodata_path": "/tmp/o7ht8_17/data/geodata/geo_data.csv",
- "out_folder": "data/covid-19_rates",
- "ts_folder": "/tmp/o7ht8_17/data/covid-19_jhu-csse",
- "wb_path": "/tmp/o7ht8_17/data/worldbank/SP.POP.TOTL.zip"
+ "geodata_path": "./data/geodata/geo_data.csv",
+ "out_folder": "./data/covid-19_rates/",
+ "ts_folder": "./data/covid-19_jhu-csse/",
+ "wb_path": "./data/atlas/worldbank/SP.POP.TOTL.zip"
},
- "start_time": "2020-04-07T07:26:22.935405",
+ "start_time": "2020-04-09T05:00:37.360150",
"version": "1.1.0"
}
},