diff --git a/.renku/workflow/996b6b86b965481f96d76a6f19518a32.cwl b/.renku/workflow/996b6b86b965481f96d76a6f19518a32.cwl
new file mode 100644
index 0000000000000000000000000000000000000000..a70cab1b0894b45fdb6210726544b051faead6ca
--- /dev/null
+++ b/.renku/workflow/996b6b86b965481f96d76a6f19518a32.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-metadata.json
+ streamable: false
+ type: string
+ input_6:
+ default: states-daily.json
+ streamable: false
+ type: string
+outputs:
+ output_1:
+ outputSource: step_1/output_1
+ streamable: false
+ type: Directory
+ output_2:
+ 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_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-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
+ 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-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
+ - *id002
+ successCodes: []
+ temporaryFailCodes: []
diff --git a/data/covidtracking/states-daily.json b/data/covidtracking/states-daily.json
index 0ca3ce03c1a9b10f63a02f59720aa50c549fbed9..d71d510131864e376d754a41cf6833afb98dcdaf 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:a624d3f17242e07532ae74e0a91bceb2562e10c5d51d52aaae2064a6c43a4a0a
-size 19306923
+oid sha256:babd48263f9decd6af9d82c13cf75de23e3938855b29d61277071026e9c0c360
+size 19384110
diff --git a/data/covidtracking/states-metadata.json b/data/covidtracking/states-metadata.json
index 0d51c71206c71c8455bcb307b24f932aa353b283..6bc4c450ed665eff92045cd53e4ffa8525d7b77d 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 sha256:4820e5e0b14cdf83f2adbca3b264c719c612711e940e0e53cfb18b795d99873c
-size 116902
+oid sha256:529c259e9dfe1bc1256570ade6588b0e62b2648db3f22bdb8d8af6af75bbb5d6
+size 118467
diff --git a/runs/download-covidtracking-data.runs.ipynb b/runs/download-covidtracking-data.runs.ipynb
index 9a5dc3172c32606f309127295a44cac6525e7fe9..be3556398d8bf4e942d410cb014ae1ee3c29ce0d 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": 3.486428,
- "end_time": "2020-11-11T07:37:20.490952",
+ "duration": 5.140415,
+ "end_time": "2020-11-12T07:37:44.046695",
"exception": false,
- "start_time": "2020-11-11T07:37:17.004524",
+ "start_time": "2020-11-12T07:37:38.906280",
"status": "completed"
},
"tags": []
@@ -25,10 +25,10 @@
"execution_count": 2,
"metadata": {
"papermill": {
- "duration": 0.021188,
- "end_time": "2020-11-11T07:37:20.525455",
+ "duration": 0.021454,
+ "end_time": "2020-11-12T07:37:44.082314",
"exception": false,
- "start_time": "2020-11-11T07:37:20.504267",
+ "start_time": "2020-11-12T07:37:44.060860",
"status": "completed"
},
"tags": [
@@ -46,10 +46,10 @@
"execution_count": 3,
"metadata": {
"papermill": {
- "duration": 0.020446,
- "end_time": "2020-11-11T07:37:20.554599",
+ "duration": 0.018562,
+ "end_time": "2020-11-12T07:37:44.108496",
"exception": false,
- "start_time": "2020-11-11T07:37:20.534153",
+ "start_time": "2020-11-12T07:37:44.089934",
"status": "completed"
},
"tags": [
@@ -59,7 +59,7 @@
"outputs": [],
"source": [
"# Parameters\n",
- "PAPERMILL_INPUT_PATH = \"/tmp/jxtcd406/notebooks/process/download-covidtracking-data.ipynb\"\n",
+ "PAPERMILL_INPUT_PATH = \"/tmp/g2e0cwhg/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": 0.007527,
- "end_time": "2020-11-11T07:37:20.570224",
+ "duration": 0.005836,
+ "end_time": "2020-11-12T07:37:44.120706",
"exception": false,
- "start_time": "2020-11-11T07:37:20.562697",
+ "start_time": "2020-11-12T07:37:44.114870",
"status": "completed"
},
"tags": []
@@ -87,10 +87,10 @@
"execution_count": 4,
"metadata": {
"papermill": {
- "duration": 0.840977,
- "end_time": "2020-11-11T07:37:21.416769",
+ "duration": 0.385961,
+ "end_time": "2020-11-12T07:37:44.511193",
"exception": false,
- "start_time": "2020-11-11T07:37:20.575792",
+ "start_time": "2020-11-12T07:37:44.125232",
"status": "completed"
},
"tags": []
@@ -107,10 +107,10 @@
"execution_count": 5,
"metadata": {
"papermill": {
- "duration": 0.02556,
- "end_time": "2020-11-11T07:37:21.456405",
+ "duration": 0.022275,
+ "end_time": "2020-11-12T07:37:44.547570",
"exception": false,
- "start_time": "2020-11-11T07:37:21.430845",
+ "start_time": "2020-11-12T07:37:44.525295",
"status": "completed"
},
"tags": []
@@ -129,10 +129,10 @@
"execution_count": 6,
"metadata": {
"papermill": {
- "duration": 0.072094,
- "end_time": "2020-11-11T07:37:21.541562",
+ "duration": 0.064783,
+ "end_time": "2020-11-12T07:37:44.619971",
"exception": false,
- "start_time": "2020-11-11T07:37:21.469468",
+ "start_time": "2020-11-12T07:37:44.555188",
"status": "completed"
},
"tags": []
@@ -280,10 +280,10 @@
"cell_type": "markdown",
"metadata": {
"papermill": {
- "duration": 0.007925,
- "end_time": "2020-11-11T07:37:21.561857",
+ "duration": 0.007389,
+ "end_time": "2020-11-12T07:37:44.639765",
"exception": false,
- "start_time": "2020-11-11T07:37:21.553932",
+ "start_time": "2020-11-12T07:37:44.632376",
"status": "completed"
},
"tags": []
@@ -297,10 +297,10 @@
"execution_count": 7,
"metadata": {
"papermill": {
- "duration": 0.443584,
- "end_time": "2020-11-11T07:37:22.010827",
+ "duration": 0.455541,
+ "end_time": "2020-11-12T07:37:45.101712",
"exception": false,
- "start_time": "2020-11-11T07:37:21.567243",
+ "start_time": "2020-11-12T07:37:44.646171",
"status": "completed"
},
"tags": []
@@ -317,10 +317,10 @@
"execution_count": 8,
"metadata": {
"papermill": {
- "duration": 0.047709,
- "end_time": "2020-11-11T07:37:22.074585",
+ "duration": 0.026651,
+ "end_time": "2020-11-12T07:37:45.134927",
"exception": false,
- "start_time": "2020-11-11T07:37:22.026876",
+ "start_time": "2020-11-12T07:37:45.108276",
"status": "completed"
},
"tags": []
@@ -339,10 +339,10 @@
"execution_count": 9,
"metadata": {
"papermill": {
- "duration": 0.536519,
- "end_time": "2020-11-11T07:37:22.626284",
+ "duration": 0.508568,
+ "end_time": "2020-11-12T07:37:45.648467",
"exception": false,
- "start_time": "2020-11-11T07:37:22.089765",
+ "start_time": "2020-11-12T07:37:45.139899",
"status": "completed"
},
"tags": []
@@ -352,7 +352,7 @@
"name": "stdout",
"output_type": "stream",
"text": [
- "14167 data points\n"
+ "14223 data points\n"
]
},
{
@@ -402,21 +402,21 @@
" <tbody>\n",
" <tr>\n",
" <th>0</th>\n",
- " <td>20201110</td>\n",
+ " <td>20201111</td>\n",
" <td>AK</td>\n",
- " <td>20832.0</td>\n",
+ " <td>21331.0</td>\n",
" <td>NaN</td>\n",
- " <td>807308.0</td>\n",
+ " <td>813259.0</td>\n",
" <td>NaN</td>\n",
" <td>totalTestsViral</td>\n",
- " <td>828140.0</td>\n",
- " <td>120.0</td>\n",
+ " <td>834590.0</td>\n",
+ " <td>117.0</td>\n",
" <td>NaN</td>\n",
" <td>...</td>\n",
- " <td>828140</td>\n",
- " <td>8</td>\n",
+ " <td>834590</td>\n",
+ " <td>4</td>\n",
" <td>0</td>\n",
- " <td>46e28ec7ada24608af43b6ea894722e776bc3c2c</td>\n",
+ " <td>54c6a77d7d1f67807c0d8c1ff07f4b3ab0132140</td>\n",
" <td>0</td>\n",
" <td>0</td>\n",
" <td>0</td>\n",
@@ -426,21 +426,21 @@
" </tr>\n",
" <tr>\n",
" <th>1</th>\n",
- " <td>20201110</td>\n",
+ " <td>20201111</td>\n",
" <td>AL</td>\n",
- " <td>206567.0</td>\n",
- " <td>31580.0</td>\n",
- " <td>1231152.0</td>\n",
+ " <td>208637.0</td>\n",
+ " <td>32282.0</td>\n",
+ " <td>1245235.0</td>\n",
" <td>NaN</td>\n",
" <td>totalTestsViral</td>\n",
- " <td>1406139.0</td>\n",
- " <td>1206.0</td>\n",
+ " <td>1421590.0</td>\n",
+ " <td>1210.0</td>\n",
" <td>21886.0</td>\n",
" <td>...</td>\n",
- " <td>1437719</td>\n",
- " <td>36</td>\n",
- " <td>592</td>\n",
- " <td>9b5e8f2e29cb12f58314accdd17ba4c4a8e15a65</td>\n",
+ " <td>1453872</td>\n",
+ " <td>81</td>\n",
+ " <td>0</td>\n",
+ " <td>a7a21b2a579a0ef9c3c9fdce8e950c09220d5985</td>\n",
" <td>0</td>\n",
" <td>0</td>\n",
" <td>0</td>\n",
@@ -455,20 +455,20 @@
],
"text/plain": [
" date state positive probableCases negative pending \\\n",
- "0 20201110 AK 20832.0 NaN 807308.0 NaN \n",
- "1 20201110 AL 206567.0 31580.0 1231152.0 NaN \n",
+ "0 20201111 AK 21331.0 NaN 813259.0 NaN \n",
+ "1 20201111 AL 208637.0 32282.0 1245235.0 NaN \n",
"\n",
" totalTestResultsSource totalTestResults hospitalizedCurrently \\\n",
- "0 totalTestsViral 828140.0 120.0 \n",
- "1 totalTestsViral 1406139.0 1206.0 \n",
+ "0 totalTestsViral 834590.0 117.0 \n",
+ "1 totalTestsViral 1421590.0 1210.0 \n",
"\n",
" hospitalizedCumulative ... posNeg deathIncrease hospitalizedIncrease \\\n",
- "0 NaN ... 828140 8 0 \n",
- "1 21886.0 ... 1437719 36 592 \n",
+ "0 NaN ... 834590 4 0 \n",
+ "1 21886.0 ... 1453872 81 0 \n",
"\n",
" hash commercialScore \\\n",
- "0 46e28ec7ada24608af43b6ea894722e776bc3c2c 0 \n",
- "1 9b5e8f2e29cb12f58314accdd17ba4c4a8e15a65 0 \n",
+ "0 54c6a77d7d1f67807c0d8c1ff07f4b3ab0132140 0 \n",
+ "1 a7a21b2a579a0ef9c3c9fdce8e950c09220d5985 0 \n",
"\n",
" negativeRegularScore negativeScore positiveScore score grade \n",
"0 0 0 0 0 \n",
@@ -508,18 +508,18 @@
"version": "3.7.3"
},
"papermill": {
- "duration": 7.908161,
- "end_time": "2020-11-11T07:37:22.952647",
+ "duration": 8.905717,
+ "end_time": "2020-11-12T07:37:45.963024",
"environment_variables": {},
"exception": null,
- "input_path": "/tmp/jxtcd406/notebooks/process/download-covidtracking-data.ipynb",
+ "input_path": "/tmp/g2e0cwhg/notebooks/process/download-covidtracking-data.ipynb",
"output_path": "runs/download-covidtracking-data.runs.ipynb",
"parameters": {
- "PAPERMILL_INPUT_PATH": "/tmp/jxtcd406/notebooks/process/download-covidtracking-data.ipynb",
+ "PAPERMILL_INPUT_PATH": "/tmp/g2e0cwhg/notebooks/process/download-covidtracking-data.ipynb",
"PAPERMILL_OUTPUT_PATH": "runs/download-covidtracking-data.runs.ipynb",
"out_folder": "data/covidtracking"
},
- "start_time": "2020-11-11T07:37:15.044486",
+ "start_time": "2020-11-12T07:37:37.057307",
"version": "1.1.0"
}
},