diff --git a/.renku/workflow/b8aae4992da54f598cd745a0ba9e7af6.cwl b/.renku/workflow/b8aae4992da54f598cd745a0ba9e7af6.cwl
new file mode 100644
index 0000000000000000000000000000000000000000..eafaad35cba09d933087bc589d45c9bef3a35098
--- /dev/null
+++ b/.renku/workflow/b8aae4992da54f598cd745a0ba9e7af6.cwl
@@ -0,0 +1,120 @@
+class: Workflow
+cwlVersion: v1.0
+hints: []
+inputs:
+ input_1:
+ default: states-daily.json
+ streamable: false
+ type: string
+ input_2:
+ default: states-metadata.json
+ streamable: false
+ type: string
+ input_3:
+ default: out_folder
+ streamable: false
+ type: string
+ input_4:
+ default: data/covidtracking
+ streamable: false
+ type: string
+ input_5:
+ default:
+ class: File
+ path: ../../notebooks/process/download-covidtracking-data.ipynb
+ streamable: false
+ type: File
+ input_6:
+ default: runs/download-covidtracking-data.runs.ipynb
+ streamable: false
+ type: string
+outputs:
+ output_2:
+ outputSource: step_3/output_0
+ streamable: false
+ type: File
+ output_3:
+ outputSource: step_3/output_1
+ streamable: false
+ type: Directory
+requirements: []
+steps:
+ step_1:
+ in:
+ filename: input_1
+ input_directory: step_3/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_2:
+ in:
+ filename: input_2
+ input_directory: step_3/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: []
+ step_3:
+ in:
+ input_1: input_3
+ input_2: input_4
+ input_3: input_5
+ input_4: input_6
+ out:
+ - output_0
+ - output_1
+ run: ff5f474d38144c5d882c0036bd1059c2_papermill.cwl
diff --git a/data/covidtracking/states-daily.json b/data/covidtracking/states-daily.json
index 70b3261901cd75e0d3ed45d069399c0d0158a3cd..3b8367f5b9aca6f2044c5a5ac677a2d5e176abea 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 sha256:0c3c20afab79ee8a58c86d9e5e874ece8d14ade025471f38b055ce2fbe9e7a19
-size 134255
+oid sha256:cf9f11314c54abdddbb58fc07a2df986bb85d68437223dbe1052203c2505a9ca
+size 142982
diff --git a/data/covidtracking/states-metadata.json b/data/covidtracking/states-metadata.json
index e1e43bbd54952f47853b1e9542c150f5cd3f0cca..d0bee96e2baf67ae73b9f2103ca757df8509fd1f 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 sha256:7f58c89f6e95859ad0e56742374bd2aa45e76b2e2e13b3a657066459ccd619c4
-size 25781
+oid sha256:e66567f0258fc7582c4a18e8a1aef3a27182f902aa94121222468c8504ec830f
+size 25452
diff --git a/runs/download-covidtracking-data.runs.ipynb b/runs/download-covidtracking-data.runs.ipynb
index 6eadb6a64498ea6dfa0dd37e5b33ed4114f1b2fb..158c4445193789ec1ef307b85c72ca0f68c5399f 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": 0.527885,
- "end_time": "2020-03-22T08:22:00.825645",
+ "duration": 2.276469,
+ "end_time": "2020-03-23T08:22:22.453561",
"exception": false,
- "start_time": "2020-03-22T08:22:00.297760",
+ "start_time": "2020-03-23T08:22:20.177092",
"status": "completed"
},
"tags": []
@@ -25,10 +25,10 @@
"execution_count": 2,
"metadata": {
"papermill": {
- "duration": 0.016824,
- "end_time": "2020-03-22T08:22:00.852469",
+ "duration": 0.020852,
+ "end_time": "2020-03-23T08:22:22.488968",
"exception": false,
- "start_time": "2020-03-22T08:22:00.835645",
+ "start_time": "2020-03-23T08:22:22.468116",
"status": "completed"
},
"tags": [
@@ -46,10 +46,10 @@
"execution_count": 3,
"metadata": {
"papermill": {
- "duration": 0.018322,
- "end_time": "2020-03-22T08:22:00.878621",
+ "duration": 0.02465,
+ "end_time": "2020-03-23T08:22:22.522182",
"exception": false,
- "start_time": "2020-03-22T08:22:00.860299",
+ "start_time": "2020-03-23T08:22:22.497532",
"status": "completed"
},
"tags": [
@@ -59,7 +59,7 @@
"outputs": [],
"source": [
"# Parameters\n",
- "PAPERMILL_INPUT_PATH = \"/tmp/mhe9_fx8/notebooks/process/download-covidtracking-data.ipynb\"\n",
+ "PAPERMILL_INPUT_PATH = \"/tmp/iocfjzox/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": 0.01311,
- "end_time": "2020-03-22T08:22:00.900103",
+ "duration": 0.005919,
+ "end_time": "2020-03-23T08:22:22.536991",
"exception": false,
- "start_time": "2020-03-22T08:22:00.886993",
+ "start_time": "2020-03-23T08:22:22.531072",
"status": "completed"
},
"tags": []
@@ -87,10 +87,10 @@
"execution_count": 4,
"metadata": {
"papermill": {
- "duration": 1.439286,
- "end_time": "2020-03-22T08:22:02.347578",
+ "duration": 0.683247,
+ "end_time": "2020-03-23T08:22:23.226480",
"exception": false,
- "start_time": "2020-03-22T08:22:00.908292",
+ "start_time": "2020-03-23T08:22:22.543233",
"status": "completed"
},
"tags": []
@@ -107,10 +107,10 @@
"execution_count": 5,
"metadata": {
"papermill": {
- "duration": 0.018345,
- "end_time": "2020-03-22T08:22:02.374606",
+ "duration": 0.02999,
+ "end_time": "2020-03-23T08:22:23.270771",
"exception": false,
- "start_time": "2020-03-22T08:22:02.356261",
+ "start_time": "2020-03-23T08:22:23.240781",
"status": "completed"
},
"tags": []
@@ -129,10 +129,10 @@
"execution_count": 6,
"metadata": {
"papermill": {
- "duration": 0.064418,
- "end_time": "2020-03-22T08:22:02.448313",
+ "duration": 0.075074,
+ "end_time": "2020-03-23T08:22:23.356315",
"exception": false,
- "start_time": "2020-03-22T08:22:02.383895",
+ "start_time": "2020-03-23T08:22:23.281241",
"status": "completed"
},
"tags": []
@@ -239,10 +239,10 @@
"cell_type": "markdown",
"metadata": {
"papermill": {
- "duration": 0.007933,
- "end_time": "2020-03-22T08:22:02.465634",
+ "duration": 0.008205,
+ "end_time": "2020-03-23T08:22:23.377337",
"exception": false,
- "start_time": "2020-03-22T08:22:02.457701",
+ "start_time": "2020-03-23T08:22:23.369132",
"status": "completed"
},
"tags": []
@@ -256,10 +256,10 @@
"execution_count": 7,
"metadata": {
"papermill": {
- "duration": 0.840779,
- "end_time": "2020-03-22T08:22:03.314317",
+ "duration": 0.216238,
+ "end_time": "2020-03-23T08:22:23.599867",
"exception": false,
- "start_time": "2020-03-22T08:22:02.473538",
+ "start_time": "2020-03-23T08:22:23.383629",
"status": "completed"
},
"tags": []
@@ -276,10 +276,10 @@
"execution_count": 8,
"metadata": {
"papermill": {
- "duration": 0.021605,
- "end_time": "2020-03-22T08:22:03.348671",
+ "duration": 0.030954,
+ "end_time": "2020-03-23T08:22:23.651293",
"exception": false,
- "start_time": "2020-03-22T08:22:03.327066",
+ "start_time": "2020-03-23T08:22:23.620339",
"status": "completed"
},
"tags": []
@@ -298,10 +298,10 @@
"execution_count": 9,
"metadata": {
"papermill": {
- "duration": 0.055687,
- "end_time": "2020-03-22T08:22:03.415289",
+ "duration": 0.066839,
+ "end_time": "2020-03-23T08:22:23.732970",
"exception": false,
- "start_time": "2020-03-22T08:22:03.359602",
+ "start_time": "2020-03-23T08:22:23.666131",
"status": "completed"
},
"tags": []
@@ -311,7 +311,7 @@
"name": "stdout",
"output_type": "stream",
"text": [
- "869 data points\n"
+ "925 data points\n"
]
},
{
@@ -349,27 +349,27 @@
" <tbody>\n",
" <tr>\n",
" <th>0</th>\n",
- " <td>20200321</td>\n",
+ " <td>20200322</td>\n",
" <td>AK</td>\n",
- " <td>14.0</td>\n",
- " <td>758.0</td>\n",
+ " <td>22.0</td>\n",
+ " <td>946.0</td>\n",
" <td>NaN</td>\n",
" <td>0.0</td>\n",
" <td>NaN</td>\n",
- " <td>772</td>\n",
- " <td>2020-03-21T20:00:00Z</td>\n",
+ " <td>968</td>\n",
+ " <td>2020-03-22T20:00:00Z</td>\n",
" </tr>\n",
" <tr>\n",
" <th>1</th>\n",
- " <td>20200321</td>\n",
+ " <td>20200322</td>\n",
" <td>AL</td>\n",
- " <td>124.0</td>\n",
- " <td>28.0</td>\n",
+ " <td>138.0</td>\n",
+ " <td>1464.0</td>\n",
" <td>NaN</td>\n",
" <td>NaN</td>\n",
" <td>0.0</td>\n",
- " <td>152</td>\n",
- " <td>2020-03-21T20:00:00Z</td>\n",
+ " <td>1602</td>\n",
+ " <td>2020-03-22T20:00:00Z</td>\n",
" </tr>\n",
" </tbody>\n",
"</table>\n",
@@ -377,12 +377,12 @@
],
"text/plain": [
" date state positive negative pending hospitalized death total \\\n",
- "0 20200321 AK 14.0 758.0 NaN 0.0 NaN 772 \n",
- "1 20200321 AL 124.0 28.0 NaN NaN 0.0 152 \n",
+ "0 20200322 AK 22.0 946.0 NaN 0.0 NaN 968 \n",
+ "1 20200322 AL 138.0 1464.0 NaN NaN 0.0 1602 \n",
"\n",
" dateChecked \n",
- "0 2020-03-21T20:00:00Z \n",
- "1 2020-03-21T20:00:00Z "
+ "0 2020-03-22T20:00:00Z \n",
+ "1 2020-03-22T20:00:00Z "
]
},
"execution_count": 9,
@@ -416,18 +416,18 @@
"version": "3.7.3"
},
"papermill": {
- "duration": 4.297689,
- "end_time": "2020-03-22T08:22:03.739739",
+ "duration": 4.883343,
+ "end_time": "2020-03-23T08:22:24.072161",
"environment_variables": {},
"exception": null,
- "input_path": "/tmp/mhe9_fx8/notebooks/process/download-covidtracking-data.ipynb",
+ "input_path": "/tmp/iocfjzox/notebooks/process/download-covidtracking-data.ipynb",
"output_path": "runs/download-covidtracking-data.runs.ipynb",
"parameters": {
- "PAPERMILL_INPUT_PATH": "/tmp/mhe9_fx8/notebooks/process/download-covidtracking-data.ipynb",
+ "PAPERMILL_INPUT_PATH": "/tmp/iocfjzox/notebooks/process/download-covidtracking-data.ipynb",
"PAPERMILL_OUTPUT_PATH": "runs/download-covidtracking-data.runs.ipynb",
"out_folder": "data/covidtracking"
},
- "start_time": "2020-03-22T08:21:59.442050",
+ "start_time": "2020-03-23T08:22:19.188818",
"version": "1.1.0"
}
},