diff --git a/.renku/workflow/37da798c3cba4284a2eebeb2ce0d4faa.cwl b/.renku/workflow/37da798c3cba4284a2eebeb2ce0d4faa.cwl
new file mode 100644
index 0000000000000000000000000000000000000000..9b82e33cc69b30a69024870b0228dc2b3d7719ca
--- /dev/null
+++ b/.renku/workflow/37da798c3cba4284a2eebeb2ce0d4faa.cwl
@@ -0,0 +1,66 @@
+class: Workflow
+cwlVersion: v1.0
+hints: []
+inputs:
+ input_1:
+ default: ts_folder
+ streamable: false
+ type: string
+ input_2:
+ default:
+ class: Directory
+ listing: []
+ path: ../../data/covid-19_jhu-csse
+ streamable: false
+ type: Directory
+ input_3:
+ default: rates_folder
+ streamable: false
+ type: string
+ input_4:
+ default:
+ class: Directory
+ listing: []
+ path: ../../data/covid-19_rates
+ streamable: false
+ type: Directory
+ input_5:
+ default: geodata_path
+ streamable: false
+ type: string
+ input_6:
+ default:
+ class: File
+ path: ../../data/geodata/geo_data.csv
+ streamable: false
+ type: File
+ input_7:
+ default:
+ class: File
+ path: ../../notebooks/Dashboard.ipynb
+ streamable: false
+ type: File
+ input_8:
+ default: runs/Dashboard.run.ipynb
+ streamable: false
+ type: string
+outputs:
+ output_0:
+ 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
+ input_5: input_5
+ input_6: input_6
+ input_7: input_7
+ input_8: input_8
+ out:
+ - output_0
+ run: 4cc7ffe9d5a045efb048ef2222a40ffa_papermill.cwl
diff --git a/runs/Dashboard.run.ipynb b/runs/Dashboard.run.ipynb
index 1da6b73896c8e6dadff3a8da4c6ff0c862f4d64f..5396142555f9a3f9a5a9275e64f6602c431d5b0a 100644
--- a/runs/Dashboard.run.ipynb
+++ b/runs/Dashboard.run.ipynb
@@ -5,10 +5,10 @@
"execution_count": 1,
"metadata": {
"papermill": {
- "duration": 0.458218,
- "end_time": "2020-03-17T10:11:00.168855",
+ "duration": 0.559346,
+ "end_time": "2020-03-17T12:00:52.940236",
"exception": false,
- "start_time": "2020-03-17T10:10:59.710637",
+ "start_time": "2020-03-17T12:00:52.380890",
"status": "completed"
},
"tags": []
@@ -27,10 +27,10 @@
"execution_count": 2,
"metadata": {
"papermill": {
- "duration": 0.02119,
- "end_time": "2020-03-17T10:11:00.211155",
+ "duration": 0.022653,
+ "end_time": "2020-03-17T12:00:52.985525",
"exception": false,
- "start_time": "2020-03-17T10:11:00.189965",
+ "start_time": "2020-03-17T12:00:52.962872",
"status": "completed"
},
"tags": [
@@ -51,10 +51,10 @@
"execution_count": 3,
"metadata": {
"papermill": {
- "duration": 0.021467,
- "end_time": "2020-03-17T10:11:00.242752",
+ "duration": 0.024154,
+ "end_time": "2020-03-17T12:00:53.020192",
"exception": false,
- "start_time": "2020-03-17T10:11:00.221285",
+ "start_time": "2020-03-17T12:00:52.996038",
"status": "completed"
},
"tags": [
@@ -64,11 +64,11 @@
"outputs": [],
"source": [
"# Parameters\n",
- "PAPERMILL_INPUT_PATH = \"/tmp/1zkv10my/notebooks/Dashboard.ipynb\"\n",
+ "PAPERMILL_INPUT_PATH = \"/tmp/qyugxmy3/notebooks/Dashboard.ipynb\"\n",
"PAPERMILL_OUTPUT_PATH = \"runs/Dashboard.run.ipynb\"\n",
- "ts_folder = \"/tmp/1zkv10my/data/covid-19_jhu-csse\"\n",
- "rates_folder = \"/tmp/1zkv10my/data/covid-19_rates\"\n",
- "geodata_path = \"/tmp/1zkv10my/data/geodata/geo_data.csv\"\n"
+ "ts_folder = \"/tmp/qyugxmy3/data/covid-19_jhu-csse\"\n",
+ "rates_folder = \"/tmp/qyugxmy3/data/covid-19_rates\"\n",
+ "geodata_path = \"/tmp/qyugxmy3/data/geodata/geo_data.csv\"\n"
]
},
{
@@ -76,10 +76,10 @@
"execution_count": 4,
"metadata": {
"papermill": {
- "duration": 0.020872,
- "end_time": "2020-03-17T10:11:00.274917",
+ "duration": 0.022976,
+ "end_time": "2020-03-17T12:00:53.056744",
"exception": false,
- "start_time": "2020-03-17T10:11:00.254045",
+ "start_time": "2020-03-17T12:00:53.033768",
"status": "completed"
},
"tags": []
@@ -94,10 +94,10 @@
"execution_count": 5,
"metadata": {
"papermill": {
- "duration": 0.118944,
- "end_time": "2020-03-17T10:11:00.403357",
+ "duration": 0.136941,
+ "end_time": "2020-03-17T12:00:53.207218",
"exception": false,
- "start_time": "2020-03-17T10:11:00.284413",
+ "start_time": "2020-03-17T12:00:53.070277",
"status": "completed"
},
"tags": []
@@ -110,7 +110,7 @@
"\n",
"# Identify countries with 100 or more cases\n",
"countries_over_thresh = helper.countries_with_number_of_cases(jhu_frames_map, 'confirmed', 100)\n",
- "# Filter out some very small countries\n",
+ "# Filter out some countries with very high case/population ratio\n",
"countries_over_thresh = [c for c in countries_over_thresh if c not in set(['San Marino', 'Iceland'])]"
]
},
@@ -118,10 +118,10 @@
"cell_type": "markdown",
"metadata": {
"papermill": {
- "duration": 0.010293,
- "end_time": "2020-03-17T10:11:00.431297",
+ "duration": 0.010498,
+ "end_time": "2020-03-17T12:00:53.236945",
"exception": false,
- "start_time": "2020-03-17T10:11:00.421004",
+ "start_time": "2020-03-17T12:00:53.226447",
"status": "completed"
},
"tags": []
@@ -139,10 +139,10 @@
"execution_count": 6,
"metadata": {
"papermill": {
- "duration": 0.04488,
- "end_time": "2020-03-17T10:11:00.485301",
+ "duration": 0.041136,
+ "end_time": "2020-03-17T12:00:53.286385",
"exception": false,
- "start_time": "2020-03-17T10:11:00.440421",
+ "start_time": "2020-03-17T12:00:53.245249",
"status": "completed"
},
"tags": []
@@ -170,10 +170,10 @@
"cell_type": "markdown",
"metadata": {
"papermill": {
- "duration": 0.010852,
- "end_time": "2020-03-17T10:11:00.514434",
+ "duration": 0.009629,
+ "end_time": "2020-03-17T12:00:53.313176",
"exception": false,
- "start_time": "2020-03-17T10:11:00.503582",
+ "start_time": "2020-03-17T12:00:53.303547",
"status": "completed"
},
"tags": []
@@ -187,10 +187,10 @@
"execution_count": 7,
"metadata": {
"papermill": {
- "duration": 0.023074,
- "end_time": "2020-03-17T10:11:00.548715",
+ "duration": 0.020816,
+ "end_time": "2020-03-17T12:00:53.344155",
"exception": false,
- "start_time": "2020-03-17T10:11:00.525641",
+ "start_time": "2020-03-17T12:00:53.323339",
"status": "completed"
},
"tags": []
@@ -205,10 +205,10 @@
"execution_count": 8,
"metadata": {
"papermill": {
- "duration": 0.051489,
- "end_time": "2020-03-17T10:11:00.612355",
+ "duration": 0.057811,
+ "end_time": "2020-03-17T12:00:53.413580",
"exception": false,
- "start_time": "2020-03-17T10:11:00.560866",
+ "start_time": "2020-03-17T12:00:53.355769",
"status": "completed"
},
"tags": []
@@ -223,10 +223,10 @@
"execution_count": 9,
"metadata": {
"papermill": {
- "duration": 0.122006,
- "end_time": "2020-03-17T10:11:00.754759",
+ "duration": 0.117311,
+ "end_time": "2020-03-17T12:00:53.552622",
"exception": false,
- "start_time": "2020-03-17T10:11:00.632753",
+ "start_time": "2020-03-17T12:00:53.435311",
"status": "completed"
},
"tags": []
@@ -236,10 +236,10 @@
"data": {
"text/html": [
"\n",
- "<div id=\"altair-viz-e493d8fa8058495a83bddaf8d39e1814\"></div>\n",
+ "<div id=\"altair-viz-c25217e800b84ec1859c5799f1466916\"></div>\n",
"<script type=\"text/javascript\">\n",
" (function(spec, embedOpt){\n",
- " const outputDiv = document.getElementById(\"altair-viz-e493d8fa8058495a83bddaf8d39e1814\");\n",
+ " const outputDiv = document.getElementById(\"altair-viz-c25217e800b84ec1859c5799f1466916\");\n",
" const paths = {\n",
" \"vega\": \"https://cdn.jsdelivr.net/npm//vega@5?noext\",\n",
" \"vega-lib\": \"https://cdn.jsdelivr.net/npm//vega-lib?noext\",\n",
@@ -323,10 +323,10 @@
"execution_count": 10,
"metadata": {
"papermill": {
- "duration": 0.097497,
- "end_time": "2020-03-17T10:11:00.874615",
+ "duration": 0.089611,
+ "end_time": "2020-03-17T12:00:53.662219",
"exception": false,
- "start_time": "2020-03-17T10:11:00.777118",
+ "start_time": "2020-03-17T12:00:53.572608",
"status": "completed"
},
"tags": []
@@ -336,10 +336,10 @@
"data": {
"text/html": [
"\n",
- "<div id=\"altair-viz-c6740e839acf4403b40ed0387ec1177f\"></div>\n",
+ "<div id=\"altair-viz-3314eb7234cc49d68075d1deb328a5ac\"></div>\n",
"<script type=\"text/javascript\">\n",
" (function(spec, embedOpt){\n",
- " const outputDiv = document.getElementById(\"altair-viz-c6740e839acf4403b40ed0387ec1177f\");\n",
+ " const outputDiv = document.getElementById(\"altair-viz-3314eb7234cc49d68075d1deb328a5ac\");\n",
" const paths = {\n",
" \"vega\": \"https://cdn.jsdelivr.net/npm//vega@5?noext\",\n",
" \"vega-lib\": \"https://cdn.jsdelivr.net/npm//vega-lib?noext\",\n",
@@ -439,10 +439,10 @@
"cell_type": "markdown",
"metadata": {
"papermill": {
- "duration": 0.011954,
- "end_time": "2020-03-17T10:11:00.909056",
+ "duration": 0.011561,
+ "end_time": "2020-03-17T12:00:53.691969",
"exception": false,
- "start_time": "2020-03-17T10:11:00.897102",
+ "start_time": "2020-03-17T12:00:53.680408",
"status": "completed"
},
"tags": []
@@ -456,10 +456,10 @@
"execution_count": 11,
"metadata": {
"papermill": {
- "duration": 0.060066,
- "end_time": "2020-03-17T10:11:00.979454",
+ "duration": 0.071097,
+ "end_time": "2020-03-17T12:00:53.774538",
"exception": false,
- "start_time": "2020-03-17T10:11:00.919388",
+ "start_time": "2020-03-17T12:00:53.703441",
"status": "completed"
},
"tags": []
@@ -478,10 +478,10 @@
"execution_count": 12,
"metadata": {
"papermill": {
- "duration": 0.132528,
- "end_time": "2020-03-17T10:11:01.137763",
+ "duration": 0.147114,
+ "end_time": "2020-03-17T12:00:53.944454",
"exception": false,
- "start_time": "2020-03-17T10:11:01.005235",
+ "start_time": "2020-03-17T12:00:53.797340",
"status": "completed"
},
"tags": []
@@ -491,10 +491,10 @@
"data": {
"text/html": [
"\n",
- "<div id=\"altair-viz-4be5bf2aed384e65b0b603529c959e62\"></div>\n",
+ "<div id=\"altair-viz-c192bad7f48f4e3cb77036c6230391fe\"></div>\n",
"<script type=\"text/javascript\">\n",
" (function(spec, embedOpt){\n",
- " const outputDiv = document.getElementById(\"altair-viz-4be5bf2aed384e65b0b603529c959e62\");\n",
+ " const outputDiv = document.getElementById(\"altair-viz-c192bad7f48f4e3cb77036c6230391fe\");\n",
" const paths = {\n",
" \"vega\": \"https://cdn.jsdelivr.net/npm//vega@5?noext\",\n",
" \"vega-lib\": \"https://cdn.jsdelivr.net/npm//vega-lib?noext\",\n",
@@ -588,10 +588,10 @@
"execution_count": 13,
"metadata": {
"papermill": {
- "duration": 0.229241,
- "end_time": "2020-03-17T10:11:01.385083",
+ "duration": 0.23177,
+ "end_time": "2020-03-17T12:00:54.196438",
"exception": false,
- "start_time": "2020-03-17T10:11:01.155842",
+ "start_time": "2020-03-17T12:00:53.964668",
"status": "completed"
},
"tags": []
@@ -622,10 +622,10 @@
"execution_count": 14,
"metadata": {
"papermill": {
- "duration": 0.041152,
- "end_time": "2020-03-17T10:11:01.458520",
+ "duration": 0.045296,
+ "end_time": "2020-03-17T12:00:54.269707",
"exception": false,
- "start_time": "2020-03-17T10:11:01.417368",
+ "start_time": "2020-03-17T12:00:54.224411",
"status": "completed"
},
"tags": []
@@ -677,10 +677,10 @@
"execution_count": 15,
"metadata": {
"papermill": {
- "duration": 0.278153,
- "end_time": "2020-03-17T10:11:01.759851",
+ "duration": 0.249041,
+ "end_time": "2020-03-17T12:00:54.546156",
"exception": false,
- "start_time": "2020-03-17T10:11:01.481698",
+ "start_time": "2020-03-17T12:00:54.297115",
"status": "completed"
},
"tags": []
@@ -690,10 +690,10 @@
"data": {
"text/html": [
"\n",
- "<div id=\"altair-viz-6dc91cf4c57e43f9a48d8b3dfa8ce099\"></div>\n",
+ "<div id=\"altair-viz-5f070b1daaec4d76bb56158d3cc8a9db\"></div>\n",
"<script type=\"text/javascript\">\n",
" (function(spec, embedOpt){\n",
- " const outputDiv = document.getElementById(\"altair-viz-6dc91cf4c57e43f9a48d8b3dfa8ce099\");\n",
+ " const outputDiv = document.getElementById(\"altair-viz-5f070b1daaec4d76bb56158d3cc8a9db\");\n",
" const paths = {\n",
" \"vega\": \"https://cdn.jsdelivr.net/npm//vega@5?noext\",\n",
" \"vega-lib\": \"https://cdn.jsdelivr.net/npm//vega-lib?noext\",\n",
@@ -789,10 +789,10 @@
"execution_count": 16,
"metadata": {
"papermill": {
- "duration": 0.268107,
- "end_time": "2020-03-17T10:11:02.053729",
+ "duration": 0.257212,
+ "end_time": "2020-03-17T12:00:54.830709",
"exception": false,
- "start_time": "2020-03-17T10:11:01.785622",
+ "start_time": "2020-03-17T12:00:54.573497",
"status": "completed"
},
"tags": []
@@ -802,10 +802,10 @@
"data": {
"text/html": [
"\n",
- "<div id=\"altair-viz-1d15b1a2fa0e492a85459c8ed2773078\"></div>\n",
+ "<div id=\"altair-viz-ad2d06feeb31416ba5563e36e6471ec7\"></div>\n",
"<script type=\"text/javascript\">\n",
" (function(spec, embedOpt){\n",
- " const outputDiv = document.getElementById(\"altair-viz-1d15b1a2fa0e492a85459c8ed2773078\");\n",
+ " const outputDiv = document.getElementById(\"altair-viz-ad2d06feeb31416ba5563e36e6471ec7\");\n",
" const paths = {\n",
" \"vega\": \"https://cdn.jsdelivr.net/npm//vega@5?noext\",\n",
" \"vega-lib\": \"https://cdn.jsdelivr.net/npm//vega-lib?noext\",\n",
@@ -912,20 +912,20 @@
"version": "3.7.6"
},
"papermill": {
- "duration": 3.525527,
- "end_time": "2020-03-17T10:11:02.396887",
+ "duration": 3.876895,
+ "end_time": "2020-03-17T12:00:55.177234",
"environment_variables": {},
"exception": null,
- "input_path": "/tmp/1zkv10my/notebooks/Dashboard.ipynb",
+ "input_path": "/tmp/qyugxmy3/notebooks/Dashboard.ipynb",
"output_path": "runs/Dashboard.run.ipynb",
"parameters": {
- "PAPERMILL_INPUT_PATH": "/tmp/1zkv10my/notebooks/Dashboard.ipynb",
+ "PAPERMILL_INPUT_PATH": "/tmp/qyugxmy3/notebooks/Dashboard.ipynb",
"PAPERMILL_OUTPUT_PATH": "runs/Dashboard.run.ipynb",
- "geodata_path": "/tmp/1zkv10my/data/geodata/geo_data.csv",
- "rates_folder": "/tmp/1zkv10my/data/covid-19_rates",
- "ts_folder": "/tmp/1zkv10my/data/covid-19_jhu-csse"
+ "geodata_path": "/tmp/qyugxmy3/data/geodata/geo_data.csv",
+ "rates_folder": "/tmp/qyugxmy3/data/covid-19_rates",
+ "ts_folder": "/tmp/qyugxmy3/data/covid-19_jhu-csse"
},
- "start_time": "2020-03-17T10:10:58.871360",
+ "start_time": "2020-03-17T12:00:51.300339",
"version": "1.1.0"
}
},