diff --git a/.renku/workflow/4999a116583346fc8f64f137bece2787.cwl b/.renku/workflow/4999a116583346fc8f64f137bece2787.cwl
new file mode 100644
index 0000000000000000000000000000000000000000..fe39d4a6290c000b671965d78ed939fcea8670f4
--- /dev/null
+++ b/.renku/workflow/4999a116583346fc8f64f137bece2787.cwl
@@ -0,0 +1,120 @@
+class: Workflow
+cwlVersion: v1.0
+hints: []
+inputs:
+ input_1:
+ default: out_folder
+ streamable: false
+ type: string
+ input_2:
+ default: data/covidtracking
+ streamable: false
+ type: string
+ input_3:
+ default:
+ class: File
+ path: ../../notebooks/process/download-covidtracking-data.ipynb
+ streamable: false
+ type: File
+ input_4:
+ default: runs/download-covidtracking-data.runs.ipynb
+ streamable: false
+ type: string
+ input_5:
+ default: states-daily.json
+ streamable: false
+ type: string
+ input_6:
+ default: states-metadata.json
+ streamable: false
+ type: string
+outputs:
+ output_0:
+ outputSource: step_1/output_0
+ streamable: false
+ type: File
+ output_1:
+ outputSource: step_1/output_1
+ streamable: false
+ type: Directory
+requirements: []
+steps:
+ step_1:
+ in:
+ input_1: input_1
+ input_2: input_2
+ input_3: input_3
+ input_4: input_4
+ out:
+ - output_1
+ - output_0
+ run: a17d560c41a54f5aa307ce5f3c5effe5_papermill.cwl
+ step_2:
+ in:
+ filename: input_5
+ input_directory: step_1/output_1
+ out:
+ - output_file
+ run:
+ arguments: []
+ baseCommand:
+ - 'true'
+ class: CommandLineTool
+ cwlVersion: v1.0
+ hints: []
+ inputs:
+ filename:
+ default: states-daily.json
+ streamable: false
+ type: string
+ input_directory:
+ streamable: false
+ type: Directory
+ outputs:
+ output_file:
+ outputBinding:
+ glob: $(inputs.filename)
+ streamable: false
+ type: File
+ permanentFailCodes: []
+ requirements:
+ - &id001
+ class: InlineJavascriptRequirement
+ - &id002
+ class: InitialWorkDirRequirement
+ listing: $(inputs.input_directory.listing)
+ successCodes: []
+ temporaryFailCodes: []
+ step_3:
+ in:
+ filename: input_6
+ input_directory: step_1/output_1
+ out:
+ - output_file
+ run:
+ arguments: []
+ baseCommand:
+ - 'true'
+ class: CommandLineTool
+ cwlVersion: v1.0
+ hints: []
+ inputs:
+ filename:
+ default: states-metadata.json
+ streamable: false
+ type: string
+ input_directory:
+ streamable: false
+ type: Directory
+ outputs:
+ output_file:
+ outputBinding:
+ glob: $(inputs.filename)
+ streamable: false
+ type: File
+ permanentFailCodes: []
+ requirements:
+ - *id001
+ - *id002
+ successCodes: []
+ temporaryFailCodes: []
diff --git a/data/covidtracking/states-daily.json b/data/covidtracking/states-daily.json
index 79108d0ddc56b64fd90e76fe08bc702e9649c7cc..edf218b9674dd9f8fda10926290c721d9ea04d14 100644
--- a/data/covidtracking/states-daily.json
+++ b/data/covidtracking/states-daily.json
@@ -1,3 +1,3 @@
version https://git-lfs.github.com/spec/v1
-oid sha256:bdad962f55521d67f534b2aeb1badaf6b703e76057653c269428a9e327f46b25
-size 20485516
+oid sha256:bb2ad9c5ece75da5d24bcf21eb89b62878125c949f6af859c2897479a4eceb6b
+size 20562632
diff --git a/data/covidtracking/states-metadata.json b/data/covidtracking/states-metadata.json
index 3ae8e969bb56dd18b12fb5df9fea5fbbe6b8694b..4c46c9342a30977aa9dd58edea1a01d40add3f7d 100644
--- a/data/covidtracking/states-metadata.json
+++ b/data/covidtracking/states-metadata.json
@@ -1,3 +1,3 @@
version https://git-lfs.github.com/spec/v1
-oid sha256:1d3ae035cdae441dea198f8a30c79af627e67e76952a06595f266a56428c44cc
-size 132306
+oid sha256:85f4353ea432c3e807ec92687176e5236a3bf67cd894566ffdbe3f3ab7464111
+size 137048
diff --git a/runs/download-covidtracking-data.runs.ipynb b/runs/download-covidtracking-data.runs.ipynb
index b71ede25110f09d17878b684980a6aac9770fc2f..470b96d9c911399b980e68c33695f3b0ed095f5c 100644
--- a/runs/download-covidtracking-data.runs.ipynb
+++ b/runs/download-covidtracking-data.runs.ipynb
@@ -5,10 +5,10 @@
"execution_count": 1,
"metadata": {
"papermill": {
- "duration": 6.475913,
- "end_time": "2020-11-26T07:58:35.675162",
+ "duration": 5.337619,
+ "end_time": "2020-11-27T07:36:46.605067",
"exception": false,
- "start_time": "2020-11-26T07:58:29.199249",
+ "start_time": "2020-11-27T07:36:41.267448",
"status": "completed"
},
"tags": []
@@ -25,10 +25,10 @@
"execution_count": 2,
"metadata": {
"papermill": {
- "duration": 0.020822,
- "end_time": "2020-11-26T07:58:35.708619",
+ "duration": 0.01986,
+ "end_time": "2020-11-27T07:36:46.637566",
"exception": false,
- "start_time": "2020-11-26T07:58:35.687797",
+ "start_time": "2020-11-27T07:36:46.617706",
"status": "completed"
},
"tags": [
@@ -46,10 +46,10 @@
"execution_count": 3,
"metadata": {
"papermill": {
- "duration": 0.017946,
- "end_time": "2020-11-26T07:58:35.734541",
+ "duration": 0.018416,
+ "end_time": "2020-11-27T07:36:46.663773",
"exception": false,
- "start_time": "2020-11-26T07:58:35.716595",
+ "start_time": "2020-11-27T07:36:46.645357",
"status": "completed"
},
"tags": [
@@ -59,7 +59,7 @@
"outputs": [],
"source": [
"# Parameters\n",
- "PAPERMILL_INPUT_PATH = \"/tmp/p4r5vl68/notebooks/process/download-covidtracking-data.ipynb\"\n",
+ "PAPERMILL_INPUT_PATH = \"/tmp/rqwp5r7w/notebooks/process/download-covidtracking-data.ipynb\"\n",
"PAPERMILL_OUTPUT_PATH = \"runs/download-covidtracking-data.runs.ipynb\"\n",
"out_folder = \"data/covidtracking\"\n"
]
@@ -68,10 +68,10 @@
"cell_type": "markdown",
"metadata": {
"papermill": {
- "duration": 0.005967,
- "end_time": "2020-11-26T07:58:35.746416",
+ "duration": 0.00507,
+ "end_time": "2020-11-27T07:36:46.675456",
"exception": false,
- "start_time": "2020-11-26T07:58:35.740449",
+ "start_time": "2020-11-27T07:36:46.670386",
"status": "completed"
},
"tags": []
@@ -87,10 +87,10 @@
"execution_count": 4,
"metadata": {
"papermill": {
- "duration": 10.821161,
- "end_time": "2020-11-26T07:58:46.572554",
+ "duration": 0.385069,
+ "end_time": "2020-11-27T07:36:47.064880",
"exception": false,
- "start_time": "2020-11-26T07:58:35.751393",
+ "start_time": "2020-11-27T07:36:46.679811",
"status": "completed"
},
"tags": []
@@ -107,10 +107,10 @@
"execution_count": 5,
"metadata": {
"papermill": {
- "duration": 0.029661,
- "end_time": "2020-11-26T07:58:46.614568",
+ "duration": 0.023918,
+ "end_time": "2020-11-27T07:36:47.102050",
"exception": false,
- "start_time": "2020-11-26T07:58:46.584907",
+ "start_time": "2020-11-27T07:36:47.078132",
"status": "completed"
},
"tags": []
@@ -129,10 +129,10 @@
"execution_count": 6,
"metadata": {
"papermill": {
- "duration": 0.063953,
- "end_time": "2020-11-26T07:58:46.690388",
+ "duration": 0.070892,
+ "end_time": "2020-11-27T07:36:47.180661",
"exception": false,
- "start_time": "2020-11-26T07:58:46.626435",
+ "start_time": "2020-11-27T07:36:47.109769",
"status": "completed"
},
"tags": []
@@ -284,10 +284,10 @@
"cell_type": "markdown",
"metadata": {
"papermill": {
- "duration": 0.00631,
- "end_time": "2020-11-26T07:58:46.707816",
+ "duration": 0.008123,
+ "end_time": "2020-11-27T07:36:47.201689",
"exception": false,
- "start_time": "2020-11-26T07:58:46.701506",
+ "start_time": "2020-11-27T07:36:47.193566",
"status": "completed"
},
"tags": []
@@ -301,10 +301,10 @@
"execution_count": 7,
"metadata": {
"papermill": {
- "duration": 10.615746,
- "end_time": "2020-11-26T07:58:57.330443",
+ "duration": 0.646562,
+ "end_time": "2020-11-27T07:36:47.854170",
"exception": false,
- "start_time": "2020-11-26T07:58:46.714697",
+ "start_time": "2020-11-27T07:36:47.207608",
"status": "completed"
},
"tags": []
@@ -321,10 +321,10 @@
"execution_count": 8,
"metadata": {
"papermill": {
- "duration": 0.035601,
- "end_time": "2020-11-26T07:58:57.378913",
+ "duration": 0.050376,
+ "end_time": "2020-11-27T07:36:47.919674",
"exception": false,
- "start_time": "2020-11-26T07:58:57.343312",
+ "start_time": "2020-11-27T07:36:47.869298",
"status": "completed"
},
"tags": []
@@ -343,10 +343,10 @@
"execution_count": 9,
"metadata": {
"papermill": {
- "duration": 0.515161,
- "end_time": "2020-11-26T07:58:57.904857",
+ "duration": 0.559813,
+ "end_time": "2020-11-27T07:36:48.493390",
"exception": false,
- "start_time": "2020-11-26T07:58:57.389696",
+ "start_time": "2020-11-27T07:36:47.933577",
"status": "completed"
},
"tags": []
@@ -356,7 +356,7 @@
"name": "stdout",
"output_type": "stream",
"text": [
- "15017 data points\n"
+ "15073 data points\n"
]
},
{
@@ -406,21 +406,21 @@
" <tbody>\n",
" <tr>\n",
" <th>0</th>\n",
- " <td>20201125</td>\n",
+ " <td>20201126</td>\n",
" <td>AK</td>\n",
- " <td>28339.0</td>\n",
+ " <td>28892.0</td>\n",
" <td>NaN</td>\n",
- " <td>925937.0</td>\n",
+ " <td>940681.0</td>\n",
" <td>NaN</td>\n",
" <td>totalTestsViral</td>\n",
- " <td>954276.0</td>\n",
+ " <td>969573.0</td>\n",
" <td>145.0</td>\n",
- " <td>663.0</td>\n",
+ " <td>688.0</td>\n",
" <td>...</td>\n",
- " <td>954276</td>\n",
- " <td>0</td>\n",
- " <td>32</td>\n",
- " <td>e4015d41f79fe8f9552517702ee27996c0d86b6a</td>\n",
+ " <td>969573</td>\n",
+ " <td>3</td>\n",
+ " <td>25</td>\n",
+ " <td>dcdef309762dffbb3f252251698f060c4c11e56f</td>\n",
" <td>0</td>\n",
" <td>0</td>\n",
" <td>0</td>\n",
@@ -430,21 +430,21 @@
" </tr>\n",
" <tr>\n",
" <th>1</th>\n",
- " <td>20201125</td>\n",
+ " <td>20201126</td>\n",
" <td>AL</td>\n",
- " <td>239318.0</td>\n",
- " <td>39692.0</td>\n",
- " <td>1353961.0</td>\n",
+ " <td>241957.0</td>\n",
+ " <td>40202.0</td>\n",
+ " <td>1361187.0</td>\n",
" <td>NaN</td>\n",
" <td>totalTestsViral</td>\n",
- " <td>1553587.0</td>\n",
- " <td>1483.0</td>\n",
- " <td>24376.0</td>\n",
+ " <td>1562942.0</td>\n",
+ " <td>1434.0</td>\n",
+ " <td>24401.0</td>\n",
" <td>...</td>\n",
- " <td>1593279</td>\n",
- " <td>60</td>\n",
- " <td>216</td>\n",
- " <td>cfbf3932514b39bd3f684d0fc235d8daa8009616</td>\n",
+ " <td>1603144</td>\n",
+ " <td>40</td>\n",
+ " <td>25</td>\n",
+ " <td>751d7219f69c39f0970b03836d9448ceec5db281</td>\n",
" <td>0</td>\n",
" <td>0</td>\n",
" <td>0</td>\n",
@@ -459,20 +459,20 @@
],
"text/plain": [
" date state positive probableCases negative pending \\\n",
- "0 20201125 AK 28339.0 NaN 925937.0 NaN \n",
- "1 20201125 AL 239318.0 39692.0 1353961.0 NaN \n",
+ "0 20201126 AK 28892.0 NaN 940681.0 NaN \n",
+ "1 20201126 AL 241957.0 40202.0 1361187.0 NaN \n",
"\n",
" totalTestResultsSource totalTestResults hospitalizedCurrently \\\n",
- "0 totalTestsViral 954276.0 145.0 \n",
- "1 totalTestsViral 1553587.0 1483.0 \n",
+ "0 totalTestsViral 969573.0 145.0 \n",
+ "1 totalTestsViral 1562942.0 1434.0 \n",
"\n",
" hospitalizedCumulative ... posNeg deathIncrease hospitalizedIncrease \\\n",
- "0 663.0 ... 954276 0 32 \n",
- "1 24376.0 ... 1593279 60 216 \n",
+ "0 688.0 ... 969573 3 25 \n",
+ "1 24401.0 ... 1603144 40 25 \n",
"\n",
" hash commercialScore \\\n",
- "0 e4015d41f79fe8f9552517702ee27996c0d86b6a 0 \n",
- "1 cfbf3932514b39bd3f684d0fc235d8daa8009616 0 \n",
+ "0 dcdef309762dffbb3f252251698f060c4c11e56f 0 \n",
+ "1 751d7219f69c39f0970b03836d9448ceec5db281 0 \n",
"\n",
" negativeRegularScore negativeScore positiveScore score grade \n",
"0 0 0 0 0 \n",
@@ -512,18 +512,18 @@
"version": "3.7.3"
},
"papermill": {
- "duration": 31.109234,
- "end_time": "2020-11-26T07:58:58.230145",
+ "duration": 9.421571,
+ "end_time": "2020-11-27T07:36:48.817125",
"environment_variables": {},
"exception": null,
- "input_path": "/tmp/p4r5vl68/notebooks/process/download-covidtracking-data.ipynb",
+ "input_path": "/tmp/rqwp5r7w/notebooks/process/download-covidtracking-data.ipynb",
"output_path": "runs/download-covidtracking-data.runs.ipynb",
"parameters": {
- "PAPERMILL_INPUT_PATH": "/tmp/p4r5vl68/notebooks/process/download-covidtracking-data.ipynb",
+ "PAPERMILL_INPUT_PATH": "/tmp/rqwp5r7w/notebooks/process/download-covidtracking-data.ipynb",
"PAPERMILL_OUTPUT_PATH": "runs/download-covidtracking-data.runs.ipynb",
"out_folder": "data/covidtracking"
},
- "start_time": "2020-11-26T07:58:27.120911",
+ "start_time": "2020-11-27T07:36:39.395554",
"version": "1.1.0"
}
},