diff --git a/.renku/workflow/efbdf4faf6d44153b72a3640f38d4831.cwl b/.renku/workflow/efbdf4faf6d44153b72a3640f38d4831.cwl
new file mode 100644
index 0000000000000000000000000000000000000000..299afccddd5c837b398d8df8303e7a19c99d8e34
--- /dev/null
+++ b/.renku/workflow/efbdf4faf6d44153b72a3640f38d4831.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_1:
+ outputSource: step_1/output_1
+ streamable: false
+ type: Directory
+ output_3:
+ outputSource: step_1/output_0
+ streamable: false
+ type: File
+requirements: []
+steps:
+ step_1:
+ in:
+ input_1: input_1
+ input_2: input_2
+ input_3: input_3
+ input_4: input_4
+ out:
+ - output_0
+ - output_1
+ 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 956bc691b809b6452e4b084745fb5b69aea660e3..313b4dcd8ba026393bf8d856e6f3ed39fb0fbff2 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 sha256:8b56cd3e63adc5312bee8ff1200f683bf0eedb6d3f2a8062e14bf14427bfb380
-size 20235966
+oid sha256:3e3f573dfadd19add61f23f173c691376a9e7314f675c8c95d4d6587250003de
+size 20320781
diff --git a/data/covidtracking/states-metadata.json b/data/covidtracking/states-metadata.json
index 6755c3dd306f8b980931902cdb3867f243059f34..338e4649aefc02038004ea48c352bed36bd9c059 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 sha256:1e5d2f5ddd46de871293f810366044abbcd262d74f31f0e6c902fa4296762d9b
-size 128145
+oid sha256:ae36642b16f7dc2df25eba3634adfd5772731de2874d7bd625fe1b87d8a8bed7
+size 129621
diff --git a/runs/download-covidtracking-data.runs.ipynb b/runs/download-covidtracking-data.runs.ipynb
index a8eb5e15ee17d03325f75d01c6f4656c13d12f28..5e9efabf370f5c19464dfb67b3ed22b72c8639fb 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": 4.315171,
- "end_time": "2020-11-23T07:38:05.453200",
+ "duration": 5.255276,
+ "end_time": "2020-11-24T07:44:49.459961",
"exception": false,
- "start_time": "2020-11-23T07:38:01.138029",
+ "start_time": "2020-11-24T07:44:44.204685",
"status": "completed"
},
"tags": []
@@ -25,10 +25,10 @@
"execution_count": 2,
"metadata": {
"papermill": {
- "duration": 0.021568,
- "end_time": "2020-11-23T07:38:05.490145",
+ "duration": 0.023889,
+ "end_time": "2020-11-24T07:44:49.499512",
"exception": false,
- "start_time": "2020-11-23T07:38:05.468577",
+ "start_time": "2020-11-24T07:44:49.475623",
"status": "completed"
},
"tags": [
@@ -46,10 +46,10 @@
"execution_count": 3,
"metadata": {
"papermill": {
- "duration": 0.016979,
- "end_time": "2020-11-23T07:38:05.515643",
+ "duration": 0.010921,
+ "end_time": "2020-11-24T07:44:49.516597",
"exception": false,
- "start_time": "2020-11-23T07:38:05.498664",
+ "start_time": "2020-11-24T07:44:49.505676",
"status": "completed"
},
"tags": [
@@ -59,7 +59,7 @@
"outputs": [],
"source": [
"# Parameters\n",
- "PAPERMILL_INPUT_PATH = \"/tmp/gti3qup1/notebooks/process/download-covidtracking-data.ipynb\"\n",
+ "PAPERMILL_INPUT_PATH = \"/tmp/t0y_essg/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": 0.006709,
- "end_time": "2020-11-23T07:38:05.527788",
+ "duration": 0.004343,
+ "end_time": "2020-11-24T07:44:49.525362",
"exception": false,
- "start_time": "2020-11-23T07:38:05.521079",
+ "start_time": "2020-11-24T07:44:49.521019",
"status": "completed"
},
"tags": []
@@ -87,10 +87,10 @@
"execution_count": 4,
"metadata": {
"papermill": {
- "duration": 0.819824,
- "end_time": "2020-11-23T07:38:06.352491",
+ "duration": 10.391367,
+ "end_time": "2020-11-24T07:44:59.920943",
"exception": false,
- "start_time": "2020-11-23T07:38:05.532667",
+ "start_time": "2020-11-24T07:44:49.529576",
"status": "completed"
},
"tags": []
@@ -107,10 +107,10 @@
"execution_count": 5,
"metadata": {
"papermill": {
- "duration": 0.024026,
- "end_time": "2020-11-23T07:38:06.388073",
+ "duration": 0.024074,
+ "end_time": "2020-11-24T07:44:59.957871",
"exception": false,
- "start_time": "2020-11-23T07:38:06.364047",
+ "start_time": "2020-11-24T07:44:59.933797",
"status": "completed"
},
"tags": []
@@ -129,10 +129,10 @@
"execution_count": 6,
"metadata": {
"papermill": {
- "duration": 0.071082,
- "end_time": "2020-11-23T07:38:06.468790",
+ "duration": 0.066306,
+ "end_time": "2020-11-24T07:45:00.032836",
"exception": false,
- "start_time": "2020-11-23T07:38:06.397708",
+ "start_time": "2020-11-24T07:44:59.966530",
"status": "completed"
},
"tags": []
@@ -284,10 +284,10 @@
"cell_type": "markdown",
"metadata": {
"papermill": {
- "duration": 0.00659,
- "end_time": "2020-11-23T07:38:06.486563",
+ "duration": 0.007437,
+ "end_time": "2020-11-24T07:45:00.052559",
"exception": false,
- "start_time": "2020-11-23T07:38:06.479973",
+ "start_time": "2020-11-24T07:45:00.045122",
"status": "completed"
},
"tags": []
@@ -301,10 +301,10 @@
"execution_count": 7,
"metadata": {
"papermill": {
- "duration": 0.631132,
- "end_time": "2020-11-23T07:38:07.123740",
+ "duration": 10.634454,
+ "end_time": "2020-11-24T07:45:10.693263",
"exception": false,
- "start_time": "2020-11-23T07:38:06.492608",
+ "start_time": "2020-11-24T07:45:00.058809",
"status": "completed"
},
"tags": []
@@ -321,10 +321,10 @@
"execution_count": 8,
"metadata": {
"papermill": {
- "duration": 0.048362,
- "end_time": "2020-11-23T07:38:07.186789",
+ "duration": 0.047788,
+ "end_time": "2020-11-24T07:45:10.754629",
"exception": false,
- "start_time": "2020-11-23T07:38:07.138427",
+ "start_time": "2020-11-24T07:45:10.706841",
"status": "completed"
},
"tags": []
@@ -343,10 +343,10 @@
"execution_count": 9,
"metadata": {
"papermill": {
- "duration": 0.5637,
- "end_time": "2020-11-23T07:38:07.764924",
+ "duration": 0.55723,
+ "end_time": "2020-11-24T07:45:11.324807",
"exception": false,
- "start_time": "2020-11-23T07:38:07.201224",
+ "start_time": "2020-11-24T07:45:10.767577",
"status": "completed"
},
"tags": []
@@ -356,7 +356,7 @@
"name": "stdout",
"output_type": "stream",
"text": [
- "14841 data points\n"
+ "14899 data points\n"
]
},
{
@@ -406,21 +406,21 @@
" <tbody>\n",
" <tr>\n",
" <th>0</th>\n",
- " <td>20201122</td>\n",
+ " <td>20201123</td>\n",
" <td>AK</td>\n",
- " <td>26587.0</td>\n",
+ " <td>27085.0</td>\n",
" <td>NaN</td>\n",
- " <td>899774.0</td>\n",
+ " <td>905931.0</td>\n",
" <td>NaN</td>\n",
" <td>totalTestsViral</td>\n",
- " <td>926361.0</td>\n",
- " <td>133.0</td>\n",
- " <td>612.0</td>\n",
+ " <td>933016.0</td>\n",
+ " <td>146.0</td>\n",
+ " <td>617.0</td>\n",
" <td>...</td>\n",
- " <td>926361</td>\n",
- " <td>1</td>\n",
+ " <td>933016</td>\n",
" <td>0</td>\n",
- " <td>597df917af4cf6d52bb240230523f16f37ab083e</td>\n",
+ " <td>5</td>\n",
+ " <td>cbbe56430899e87f4ea8a0336bdc01fdb3b34998</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>20201122</td>\n",
+ " <td>20201123</td>\n",
" <td>AL</td>\n",
- " <td>232506.0</td>\n",
- " <td>37921.0</td>\n",
- " <td>1330801.0</td>\n",
+ " <td>234080.0</td>\n",
+ " <td>38193.0</td>\n",
+ " <td>1337741.0</td>\n",
" <td>NaN</td>\n",
" <td>totalTestsViral</td>\n",
- " <td>1525386.0</td>\n",
- " <td>1332.0</td>\n",
- " <td>23449.0</td>\n",
+ " <td>1533628.0</td>\n",
+ " <td>1427.0</td>\n",
+ " <td>23942.0</td>\n",
" <td>...</td>\n",
- " <td>1563307</td>\n",
- " <td>0</td>\n",
- " <td>0</td>\n",
- " <td>547eed4fa2ca857a0b99b1bc8989877ce9200b22</td>\n",
+ " <td>1571821</td>\n",
+ " <td>2</td>\n",
+ " <td>493</td>\n",
+ " <td>064b957eb226a47780acf699e8e184c49ced247b</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 20201122 AK 26587.0 NaN 899774.0 NaN \n",
- "1 20201122 AL 232506.0 37921.0 1330801.0 NaN \n",
+ "0 20201123 AK 27085.0 NaN 905931.0 NaN \n",
+ "1 20201123 AL 234080.0 38193.0 1337741.0 NaN \n",
"\n",
" totalTestResultsSource totalTestResults hospitalizedCurrently \\\n",
- "0 totalTestsViral 926361.0 133.0 \n",
- "1 totalTestsViral 1525386.0 1332.0 \n",
+ "0 totalTestsViral 933016.0 146.0 \n",
+ "1 totalTestsViral 1533628.0 1427.0 \n",
"\n",
" hospitalizedCumulative ... posNeg deathIncrease hospitalizedIncrease \\\n",
- "0 612.0 ... 926361 1 0 \n",
- "1 23449.0 ... 1563307 0 0 \n",
+ "0 617.0 ... 933016 0 5 \n",
+ "1 23942.0 ... 1571821 2 493 \n",
"\n",
" hash commercialScore \\\n",
- "0 597df917af4cf6d52bb240230523f16f37ab083e 0 \n",
- "1 547eed4fa2ca857a0b99b1bc8989877ce9200b22 0 \n",
+ "0 cbbe56430899e87f4ea8a0336bdc01fdb3b34998 0 \n",
+ "1 064b957eb226a47780acf699e8e184c49ced247b 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": 9.070785,
- "end_time": "2020-11-23T07:38:08.088519",
+ "duration": 29.443362,
+ "end_time": "2020-11-24T07:45:11.646275",
"environment_variables": {},
"exception": null,
- "input_path": "/tmp/gti3qup1/notebooks/process/download-covidtracking-data.ipynb",
+ "input_path": "/tmp/t0y_essg/notebooks/process/download-covidtracking-data.ipynb",
"output_path": "runs/download-covidtracking-data.runs.ipynb",
"parameters": {
- "PAPERMILL_INPUT_PATH": "/tmp/gti3qup1/notebooks/process/download-covidtracking-data.ipynb",
+ "PAPERMILL_INPUT_PATH": "/tmp/t0y_essg/notebooks/process/download-covidtracking-data.ipynb",
"PAPERMILL_OUTPUT_PATH": "runs/download-covidtracking-data.runs.ipynb",
"out_folder": "data/covidtracking"
},
- "start_time": "2020-11-23T07:37:59.017734",
+ "start_time": "2020-11-24T07:44:42.202913",
"version": "1.1.0"
}
},