From fb28e98885e64f3bedc8c6999a88f65c57f3474c Mon Sep 17 00:00:00 2001
From: "CR (covid cron)" <cramakri+covid-cron@ethz.ch>
Date: Fri, 1 May 2020 07:33:03 +0000
Subject: [PATCH] renku update --with-siblings

---
 .../560b591f08b149eaab549f23e121daca.cwl      | 198 ++++++++++++++++++
 figures/switzerland-cases-by-canton.html      |   2 +-
 figures/switzerland-deaths-by-canton.html     |   2 +-
 runs/Dashboard.run.ipynb                      | 180 ++++++++--------
 runs/covidtracking.run.ipynb                  | 156 +++++++-------
 runs/openzh-covid-19.run.ipynb                | 112 +++++-----
 6 files changed, 424 insertions(+), 226 deletions(-)
 create mode 100644 .renku/workflow/560b591f08b149eaab549f23e121daca.cwl

diff --git a/.renku/workflow/560b591f08b149eaab549f23e121daca.cwl b/.renku/workflow/560b591f08b149eaab549f23e121daca.cwl
new file mode 100644
index 000000000..a6c9a09b0
--- /dev/null
+++ b/.renku/workflow/560b591f08b149eaab549f23e121daca.cwl
@@ -0,0 +1,198 @@
+class: Workflow
+cwlVersion: v1.0
+hints: []
+inputs:
+  input_1:
+    default:
+      class: File
+      path: ../../notebooks/Dashboard.ipynb
+    streamable: false
+    type: File
+  input_10:
+    default:
+      class: Directory
+      listing: []
+      path: ../../data/atlas
+    streamable: false
+    type: Directory
+  input_11:
+    default:
+      class: File
+      path: ../../notebooks/openzh-covid-19.ipynb
+    streamable: false
+    type: File
+  input_12:
+    default:
+      class: Directory
+      listing: []
+      path: ../../data/atlas
+    streamable: false
+    type: Directory
+  input_13:
+    default: runs/openzh-covid-19.run.ipynb
+    streamable: false
+    type: string
+  input_14:
+    default: save_figures
+    streamable: false
+    type: string
+  input_15:
+    default: 'True'
+    streamable: false
+    type: string
+  input_16:
+    default: data_path
+    streamable: false
+    type: string
+  input_17:
+    default:
+      class: Directory
+      listing: []
+      path: ../../data/openzh-covid-19
+    streamable: false
+    type: Directory
+  input_18:
+    default: figures_path
+    streamable: false
+    type: string
+  input_19:
+    default: figures
+    streamable: false
+    type: string
+  input_2:
+    default: runs/Dashboard.run.ipynb
+    streamable: false
+    type: string
+  input_20:
+    default: atlas_path
+    streamable: false
+    type: string
+  input_21:
+    default:
+      class: File
+      path: ../../notebooks/covidtracking.ipynb
+    streamable: false
+    type: File
+  input_22:
+    default: runs/covidtracking.run.ipynb
+    streamable: false
+    type: string
+  input_23:
+    default: data_path
+    streamable: false
+    type: string
+  input_24:
+    default:
+      class: Directory
+      listing: []
+      path: ../../data/covidtracking
+    streamable: false
+    type: Directory
+  input_25:
+    default: atlas_path
+    streamable: false
+    type: string
+  input_26:
+    default:
+      class: Directory
+      listing: []
+      path: ../../data/atlas
+    streamable: false
+    type: Directory
+  input_3:
+    default: ts_folder
+    streamable: false
+    type: string
+  input_4:
+    default:
+      class: Directory
+      listing: []
+      path: ../../data/covid-19_jhu-csse
+    streamable: false
+    type: Directory
+  input_5:
+    default: rates_folder
+    streamable: false
+    type: string
+  input_6:
+    default:
+      class: Directory
+      listing: []
+      path: ../../data/covid-19_rates
+    streamable: false
+    type: Directory
+  input_7:
+    default: geodata_path
+    streamable: false
+    type: string
+  input_8:
+    default:
+      class: File
+      path: ../../data/geodata/geo_data.csv
+    streamable: false
+    type: File
+  input_9:
+    default: atlas_path
+    streamable: false
+    type: string
+outputs:
+  output_0:
+    outputSource: step_3/output_0
+    streamable: false
+    type: File
+  output_1:
+    outputSource: step_2/output_0
+    streamable: false
+    type: File
+  output_2:
+    outputSource: step_1/output_0
+    streamable: false
+    type: File
+  output_3:
+    outputSource: step_2/output_1
+    streamable: false
+    type: Directory
+requirements: []
+steps:
+  step_1:
+    in:
+      input_10: input_1
+      input_11: 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: input_9
+      input_9: input_10
+    out:
+    - output_0
+    run: edeae7a3f9bd41579941a5f9b0eaf2aa_papermill.cwl
+  step_2:
+    in:
+      input_1: input_11
+      input_10: input_12
+      input_2: input_13
+      input_3: input_14
+      input_4: input_15
+      input_5: input_16
+      input_6: input_17
+      input_7: input_18
+      input_8: input_19
+      input_9: input_20
+    out:
+    - output_0
+    - output_1
+    run: d03bdcf1bad440d7ad5010cd182358d1_papermill.cwl
+  step_3:
+    in:
+      input_1: input_21
+      input_2: input_22
+      input_3: input_23
+      input_4: input_24
+      input_5: input_25
+      input_6: input_26
+    out:
+    - output_0
+    run: 2fba4568d8784fb99872b6c8a35f66b9_papermill.cwl
diff --git a/figures/switzerland-cases-by-canton.html b/figures/switzerland-cases-by-canton.html
index 1b80b9def..51827688b 100644
--- a/figures/switzerland-cases-by-canton.html
+++ b/figures/switzerland-cases-by-canton.html
@@ -14,7 +14,7 @@
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   <script>
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"AR"}, {"admin2_label": "", "admin2": "", "country_label": "Switzerland", "country": "CHE", "date": "2020-04-30T00:00:00", "deceased_100k": 5.431437158272079, "deceased_daily": "", "deceased": 3.0, "positive_100k": 171.99551001194916, "positive_daily": "", "positive": 95.0, "region_iso": "CH-AR", "region_label": "Appenzell ausserrhoden", "tested_100k": null, "tested": null, "canton": "AR"}]}};
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diff --git a/runs/Dashboard.run.ipynb b/runs/Dashboard.run.ipynb
index 239d764ee..67651e9f4 100644
--- a/runs/Dashboard.run.ipynb
+++ b/runs/Dashboard.run.ipynb
@@ -8,10 +8,10 @@
      "source_hidden": true
     },
     "papermill": {
-     "duration": 0.063554,
-     "end_time": "2020-04-30T20:47:11.774381",
+     "duration": 0.065441,
+     "end_time": "2020-05-01T07:32:49.594429",
      "exception": false,
-     "start_time": "2020-04-30T20:47:11.710827",
+     "start_time": "2020-05-01T07:32:49.528988",
      "status": "completed"
     },
     "tags": []
@@ -30,10 +30,10 @@
      "source_hidden": true
     },
     "papermill": {
-     "duration": 0.482813,
-     "end_time": "2020-04-30T20:47:12.278359",
+     "duration": 0.566959,
+     "end_time": "2020-05-01T07:32:50.180529",
      "exception": false,
-     "start_time": "2020-04-30T20:47:11.795546",
+     "start_time": "2020-05-01T07:32:49.613570",
      "status": "completed"
     },
     "tags": []
@@ -56,10 +56,10 @@
      "source_hidden": true
     },
     "papermill": {
-     "duration": 0.050495,
-     "end_time": "2020-04-30T20:47:12.349850",
+     "duration": 0.042039,
+     "end_time": "2020-05-01T07:32:50.238486",
      "exception": false,
-     "start_time": "2020-04-30T20:47:12.299355",
+     "start_time": "2020-05-01T07:32:50.196447",
      "status": "completed"
     },
     "tags": [
@@ -84,10 +84,10 @@
      "source_hidden": true
     },
     "papermill": {
-     "duration": 0.043547,
-     "end_time": "2020-04-30T20:47:12.413242",
+     "duration": 0.03976,
+     "end_time": "2020-05-01T07:32:50.296673",
      "exception": false,
-     "start_time": "2020-04-30T20:47:12.369695",
+     "start_time": "2020-05-01T07:32:50.256913",
      "status": "completed"
     },
     "tags": [
@@ -97,12 +97,12 @@
    "outputs": [],
    "source": [
     "# Parameters\n",
-    "PAPERMILL_INPUT_PATH = \"/tmp/p2oolmvh/notebooks/Dashboard.ipynb\"\n",
+    "PAPERMILL_INPUT_PATH = \"/tmp/7a3wpjk6/notebooks/Dashboard.ipynb\"\n",
     "PAPERMILL_OUTPUT_PATH = \"runs/Dashboard.run.ipynb\"\n",
-    "ts_folder = \"/tmp/p2oolmvh/data/covid-19_jhu-csse\"\n",
-    "rates_folder = \"/tmp/p2oolmvh/data/covid-19_rates\"\n",
-    "geodata_path = \"/tmp/p2oolmvh/data/geodata/geo_data.csv\"\n",
-    "atlas_path = \"/tmp/p2oolmvh/data/atlas\"\n"
+    "ts_folder = \"/tmp/7a3wpjk6/data/covid-19_jhu-csse\"\n",
+    "rates_folder = \"/tmp/7a3wpjk6/data/covid-19_rates\"\n",
+    "geodata_path = \"/tmp/7a3wpjk6/data/geodata/geo_data.csv\"\n",
+    "atlas_path = \"/tmp/7a3wpjk6/data/atlas\"\n"
    ]
   },
   {
@@ -113,10 +113,10 @@
      "source_hidden": true
     },
     "papermill": {
-     "duration": 1.482811,
-     "end_time": "2020-04-30T20:47:13.917360",
+     "duration": 1.86326,
+     "end_time": "2020-05-01T07:32:52.178890",
      "exception": false,
-     "start_time": "2020-04-30T20:47:12.434549",
+     "start_time": "2020-05-01T07:32:50.315630",
      "status": "completed"
     },
     "tags": []
@@ -147,10 +147,10 @@
      "source_hidden": true
     },
     "papermill": {
-     "duration": 0.06844,
-     "end_time": "2020-04-30T20:47:14.008221",
+     "duration": 0.056714,
+     "end_time": "2020-05-01T07:32:52.254537",
      "exception": false,
-     "start_time": "2020-04-30T20:47:13.939781",
+     "start_time": "2020-05-01T07:32:52.197823",
      "status": "completed"
     },
     "tags": []
@@ -172,10 +172,10 @@
    "cell_type": "markdown",
    "metadata": {
     "papermill": {
-     "duration": 0.012187,
-     "end_time": "2020-04-30T20:47:14.043148",
+     "duration": 0.013699,
+     "end_time": "2020-05-01T07:32:52.286368",
      "exception": false,
-     "start_time": "2020-04-30T20:47:14.030961",
+     "start_time": "2020-05-01T07:32:52.272669",
      "status": "completed"
     },
     "tags": []
@@ -196,10 +196,10 @@
      "source_hidden": true
     },
     "papermill": {
-     "duration": 0.061344,
-     "end_time": "2020-04-30T20:47:14.115910",
+     "duration": 0.048988,
+     "end_time": "2020-05-01T07:32:52.348893",
      "exception": false,
-     "start_time": "2020-04-30T20:47:14.054566",
+     "start_time": "2020-05-01T07:32:52.299905",
      "status": "completed"
     },
     "tags": []
@@ -208,7 +208,7 @@
     {
      "data": {
       "text/html": [
-       "<em>Data up to Apr 29 2020; countries with 500 or more confirmed cases.</em>"
+       "<em>Data up to Apr 30 2020; countries with 500 or more confirmed cases.</em>"
       ],
       "text/plain": [
        "<IPython.core.display.HTML object>"
@@ -227,10 +227,10 @@
    "cell_type": "markdown",
    "metadata": {
     "papermill": {
-     "duration": 0.011389,
-     "end_time": "2020-04-30T20:47:14.148195",
+     "duration": 0.01397,
+     "end_time": "2020-05-01T07:32:52.379929",
      "exception": false,
-     "start_time": "2020-04-30T20:47:14.136806",
+     "start_time": "2020-05-01T07:32:52.365959",
      "status": "completed"
     },
     "tags": []
@@ -247,10 +247,10 @@
      "source_hidden": true
     },
     "papermill": {
-     "duration": 0.054235,
-     "end_time": "2020-04-30T20:47:14.213437",
+     "duration": 0.046826,
+     "end_time": "2020-05-01T07:32:52.443466",
      "exception": false,
-     "start_time": "2020-04-30T20:47:14.159202",
+     "start_time": "2020-05-01T07:32:52.396640",
      "status": "completed"
     },
     "tags": []
@@ -268,10 +268,10 @@
      "source_hidden": true
     },
     "papermill": {
-     "duration": 0.051887,
-     "end_time": "2020-04-30T20:47:14.286999",
+     "duration": 0.047959,
+     "end_time": "2020-05-01T07:32:52.509031",
      "exception": false,
-     "start_time": "2020-04-30T20:47:14.235112",
+     "start_time": "2020-05-01T07:32:52.461072",
      "status": "completed"
     },
     "tags": []
@@ -289,10 +289,10 @@
      "source_hidden": true
     },
     "papermill": {
-     "duration": 0.149474,
-     "end_time": "2020-04-30T20:47:14.460320",
+     "duration": 0.16089,
+     "end_time": "2020-05-01T07:32:52.686941",
      "exception": false,
-     "start_time": "2020-04-30T20:47:14.310846",
+     "start_time": "2020-05-01T07:32:52.526051",
      "status": "completed"
     },
     "tags": []
@@ -302,10 +302,10 @@
      "data": {
       "text/html": [
        "\n",
-       "<div id=\"altair-viz-779743e55aa74a37a1f21c22390fb861\"></div>\n",
+       "<div id=\"altair-viz-2af45d9bee5d45df894c70c6d992387f\"></div>\n",
        "<script type=\"text/javascript\">\n",
        "  (function(spec, embedOpt){\n",
-       "    const outputDiv = document.getElementById(\"altair-viz-779743e55aa74a37a1f21c22390fb861\");\n",
+       "    const outputDiv = document.getElementById(\"altair-viz-2af45d9bee5d45df894c70c6d992387f\");\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",
@@ -346,7 +346,7 @@
        "        .catch(showError)\n",
        "        .then(() => displayChart(vegaEmbed));\n",
        "    }\n",
-       "  })({\"config\": {\"view\": {\"continuousWidth\": 400, \"continuousHeight\": 300, \"stroke\": null}}, \"layer\": [{\"data\": {\"sphere\": true}, \"mark\": {\"type\": \"geoshape\", \"fill\": \"#cae6ef\"}}, {\"data\": {\"graticule\": true}, \"mark\": {\"type\": \"geoshape\", \"stroke\": \"white\", \"strokeWidth\": 0.5}}, {\"data\": {\"url\": \"https://vega.github.io/vega-datasets/data/world-110m.json\", \"format\": {\"feature\": \"countries\", \"type\": \"topojson\"}}, \"mark\": {\"type\": \"geoshape\", \"fill\": \"#dddddd\", \"stroke\": \"#aaaaaa\"}}, {\"data\": {\"name\": \"data-dad8977a345576c37823c7f4a31df633\"}, \"mark\": {\"type\": \"circle\", \"opacity\": 0.6}, \"encoding\": {\"color\": {\"value\": \"steelblue\"}, \"latitude\": {\"field\": \"Latitude\", \"type\": \"quantitative\"}, \"longitude\": {\"field\": \"Longitude\", \"type\": \"quantitative\"}, \"size\": {\"type\": \"quantitative\", \"field\": \"positive_100k\", \"title\": \"Cases\"}, \"tooltip\": [{\"type\": 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\"Geo Region\": \"Asia\"}, {\"admin2_label\": \"\", \"admin2\": \"\", \"country_label\": \"Albania\", \"country\": \"ALB\", \"date\": \"2020-04-29T00:00:00\", \"deceased_100k\": 1.0466177500788452, \"deceased_daily\": \"\", \"deceased\": 30, \"positive_100k\": 26.723639885346515, \"positive_daily\": \"\", \"positive\": 766, \"region_iso\": \"ALB\", \"region_label\": \"Albania\", \"tested_100k\": null, \"tested\": null, \"Latitude\": 41.14244989, \"Longitude\": 20.04983396, \"Geo Region\": \"Europe\"}, {\"admin2_label\": \"\", \"admin2\": \"\", \"country_label\": \"Algeria\", \"country\": \"DZA\", \"date\": \"2020-04-29T00:00:00\", \"deceased_100k\": 1.0514243852168879, \"deceased_daily\": \"\", \"deceased\": 444, \"positive_100k\": 9.112344671879695, \"positive_daily\": \"\", \"positive\": 3848, \"region_iso\": \"DZA\", \"region_label\": \"Algeria\", \"tested_100k\": null, \"tested\": null, \"Latitude\": 28.15893849, \"Longitude\": 2.61732301, \"Geo Region\": \"Africa\"}, {\"admin2_label\": \"\", \"admin2\": \"\", \"country_label\": \"Argentina\", \"country\": \"ARG\", \"date\": \"2020-04-29T00:00:00\", \"deceased_100k\": 0.48095829907254606, \"deceased_daily\": \"\", \"deceased\": 214, \"positive_100k\": 9.630403324887196, \"positive_daily\": \"\", \"positive\": 4285, \"region_iso\": \"ARG\", \"region_label\": \"Argentina\", \"tested_100k\": null, \"tested\": null, \"Latitude\": -35.3813488, \"Longitude\": -65.17980692, \"Geo Region\": \"Americas\"}, {\"admin2_label\": \"\", \"admin2\": \"\", \"country_label\": \"Armenia\", \"country\": \"ARM\", \"date\": \"2020-04-29T00:00:00\", \"deceased_100k\": 1.016337283045868, \"deceased_daily\": \"\", \"deceased\": 30, \"positive_100k\": 65.4521210281539, \"positive_daily\": \"\", \"positive\": 1932, \"region_iso\": \"ARM\", \"region_label\": \"Armenia\", \"tested_100k\": null, \"tested\": null, \"Latitude\": 40.28952569, \"Longitude\": 44.92993276, \"Geo Region\": \"Asia\"}, {\"admin2_label\": \"\", \"admin2\": \"\", \"country_label\": \"Australia\", \"country\": \"AUS\", \"date\": \"2020-04-29T00:00:00\", \"deceased_100k\": 0.3641111412847658, \"deceased_daily\": \"\", \"deceased\": 91, \"positive_100k\": 27.01624643906306, \"positive_daily\": \"\", \"positive\": 6752, \"region_iso\": \"AUS\", \"region_label\": \"Australia\", \"tested_100k\": null, \"tested\": null, \"Latitude\": -25.73288704, \"Longitude\": 134.49100008, \"Geo Region\": \"Oceania\"}, {\"admin2_label\": \"\", \"admin2\": \"\", \"country_label\": \"Austria\", \"country\": \"AUT\", \"date\": \"2020-04-29T00:00:00\", \"deceased_100k\": 6.555867235550163, \"deceased_daily\": \"\", \"deceased\": 580, \"positive_100k\": 174.0921847619717, \"positive_daily\": \"\", \"positive\": 15402, \"region_iso\": \"AUT\", \"region_label\": \"Austria\", \"tested_100k\": null, \"tested\": null, \"Latitude\": 47.58549439, \"Longitude\": 14.1264761, \"Geo Region\": \"Europe\"}, {\"admin2_label\": \"\", \"admin2\": \"\", 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\"country\": \"BGD\", \"date\": \"2020-04-29T00:00:00\", \"deceased_100k\": 0.10101884070171059, \"deceased_daily\": \"\", \"deceased\": 163, \"positive_100k\": 4.402066414136505, \"positive_daily\": \"\", \"positive\": 7103, \"region_iso\": \"BGD\", \"region_label\": \"Bangladesh\", \"tested_100k\": null, \"tested\": null, \"Latitude\": 23.86731158, \"Longitude\": 90.23812743, \"Geo Region\": \"Asia\"}, {\"admin2_label\": \"\", \"admin2\": \"\", \"country_label\": \"Belarus\", \"country\": \"BLR\", \"date\": \"2020-04-29T00:00:00\", \"deceased_100k\": 0.8855728169628521, \"deceased_daily\": \"\", \"deceased\": 84, \"positive_100k\": 138.96113452842087, \"positive_daily\": \"\", \"positive\": 13181, \"region_iso\": \"BLR\", \"region_label\": \"Belarus\", \"tested_100k\": null, \"tested\": null, \"Latitude\": 53.53131377, \"Longitude\": 28.03209307, \"Geo Region\": \"Europe\"}, {\"admin2_label\": \"\", \"admin2\": \"\", \"country_label\": \"Belgium\", \"country\": \"BEL\", \"date\": 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        "  (function(spec, embedOpt){\n",
-       "    const outputDiv = document.getElementById(\"altair-viz-4b9cb372d1324b479167ed51b5278e7a\");\n",
+       "    const outputDiv = document.getElementById(\"altair-viz-993fc8aa162b4a3f94fbb4e273b64c7a\");\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",
@@ -872,7 +872,7 @@
        "        .catch(showError)\n",
        "        .then(() => displayChart(vegaEmbed));\n",
        "    }\n",
-       "  })({\"config\": {\"view\": {\"continuousWidth\": 400, \"continuousHeight\": 300}}, \"vconcat\": [{\"hconcat\": [{\"layer\": [{\"mark\": \"line\", \"encoding\": {\"color\": {\"type\": \"nominal\", \"field\": \"country_label\", \"title\": \"Country\"}, \"tooltip\": [{\"type\": \"nominal\", \"field\": \"country_label\"}, {\"type\": \"quantitative\", \"field\": \"sinceDay0\"}, {\"type\": \"quantitative\", \"field\": \"positive_100k\"}], \"x\": {\"type\": \"quantitative\", \"field\": \"sinceDay0\", \"title\": \"Days\"}, \"y\": {\"type\": \"quantitative\", \"field\": \"positive_100k\", \"title\": \"Cases/100k\"}}, \"height\": 150, \"title\": \"United States\", \"transform\": [{\"filter\": \"datum['country_label'] == 'United States'\"}], \"width\": 250}, {\"layer\": [{\"mark\": {\"type\": \"line\", \"opacity\": 0.3}, \"encoding\": {\"color\": {\"value\": \"steelblue\"}, \"x\": {\"type\": \"quantitative\", \"field\": \"sinceDay0\"}, \"y\": {\"type\": \"quantitative\", \"field\": 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@@ -929,10 +929,10 @@
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     "papermill": {
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-     "end_time": "2020-04-30T20:47:17.766991",
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-     "start_time": "2020-04-30T20:47:17.640540",
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      "status": "completed"
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@@ -948,10 +948,10 @@
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@@ -980,21 +980,21 @@
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-   "duration": 7.611368,
-   "end_time": "2020-04-30T20:47:18.479736",
+   "duration": 8.289881,
+   "end_time": "2020-05-01T07:32:56.965695",
    "environment_variables": {},
    "exception": null,
-   "input_path": "/tmp/p2oolmvh/notebooks/Dashboard.ipynb",
+   "input_path": "/tmp/7a3wpjk6/notebooks/Dashboard.ipynb",
    "output_path": "runs/Dashboard.run.ipynb",
    "parameters": {
-    "PAPERMILL_INPUT_PATH": "/tmp/p2oolmvh/notebooks/Dashboard.ipynb",
+    "PAPERMILL_INPUT_PATH": "/tmp/7a3wpjk6/notebooks/Dashboard.ipynb",
     "PAPERMILL_OUTPUT_PATH": "runs/Dashboard.run.ipynb",
-    "atlas_path": "/tmp/p2oolmvh/data/atlas",
-    "geodata_path": "/tmp/p2oolmvh/data/geodata/geo_data.csv",
-    "rates_folder": "/tmp/p2oolmvh/data/covid-19_rates",
-    "ts_folder": "/tmp/p2oolmvh/data/covid-19_jhu-csse"
+    "atlas_path": "/tmp/7a3wpjk6/data/atlas",
+    "geodata_path": "/tmp/7a3wpjk6/data/geodata/geo_data.csv",
+    "rates_folder": "/tmp/7a3wpjk6/data/covid-19_rates",
+    "ts_folder": "/tmp/7a3wpjk6/data/covid-19_jhu-csse"
    },
-   "start_time": "2020-04-30T20:47:10.868368",
+   "start_time": "2020-05-01T07:32:48.675814",
    "version": "1.1.0"
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diff --git a/runs/covidtracking.run.ipynb b/runs/covidtracking.run.ipynb
index c843cf544..6bae80c34 100644
--- a/runs/covidtracking.run.ipynb
+++ b/runs/covidtracking.run.ipynb
@@ -5,10 +5,10 @@
    "execution_count": 1,
    "metadata": {
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-     "duration": 0.529726,
-     "end_time": "2020-04-30T20:47:05.998723",
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-     "start_time": "2020-04-30T20:47:05.468997",
+     "start_time": "2020-05-01T07:32:42.359998",
      "status": "completed"
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     "tags": []
@@ -29,10 +29,10 @@
    "execution_count": 2,
    "metadata": {
     "papermill": {
-     "duration": 0.027287,
-     "end_time": "2020-04-30T20:47:06.046841",
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-     "start_time": "2020-04-30T20:47:06.019554",
+     "start_time": "2020-05-01T07:32:43.439736",
      "status": "completed"
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     "tags": []
@@ -53,10 +53,10 @@
    "execution_count": 3,
    "metadata": {
     "papermill": {
-     "duration": 0.024385,
-     "end_time": "2020-04-30T20:47:06.085108",
+     "duration": 0.029508,
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      "exception": false,
-     "start_time": "2020-04-30T20:47:06.060723",
+     "start_time": "2020-05-01T07:32:43.479745",
      "status": "completed"
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     "tags": [
@@ -74,10 +74,10 @@
    "execution_count": 4,
    "metadata": {
     "papermill": {
-     "duration": 0.023906,
-     "end_time": "2020-04-30T20:47:06.122747",
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      "exception": false,
-     "start_time": "2020-04-30T20:47:06.098841",
+     "start_time": "2020-05-01T07:32:43.524806",
      "status": "completed"
     },
     "tags": [
@@ -87,8 +87,8 @@
    "outputs": [],
    "source": [
     "# Parameters\n",
-    "data_path = \"/tmp/7q91sua3/data/covidtracking\"\n",
-    "atlas_path = \"/tmp/7q91sua3/data/atlas\"\n"
+    "data_path = \"/tmp/amwam5jr/data/covidtracking\"\n",
+    "atlas_path = \"/tmp/amwam5jr/data/atlas\"\n"
    ]
   },
   {
@@ -96,10 +96,10 @@
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    "metadata": {
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-     "end_time": "2020-04-30T20:47:06.371343",
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      "exception": false,
-     "start_time": "2020-04-30T20:47:06.134163",
+     "start_time": "2020-05-01T07:32:43.567113",
      "status": "completed"
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     "tags": []
@@ -119,10 +119,10 @@
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    "metadata": {
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-     "end_time": "2020-04-30T20:47:06.511528",
+     "duration": 0.12668,
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      "exception": false,
-     "start_time": "2020-04-30T20:47:06.392707",
+     "start_time": "2020-05-01T07:32:43.921341",
      "status": "completed"
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@@ -151,10 +151,10 @@
    "cell_type": "markdown",
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     "papermill": {
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-     "end_time": "2020-04-30T20:47:06.544301",
+     "duration": 0.013375,
+     "end_time": "2020-05-01T07:32:44.075087",
      "exception": false,
-     "start_time": "2020-04-30T20:47:06.532556",
+     "start_time": "2020-05-01T07:32:44.061712",
      "status": "completed"
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@@ -169,10 +169,10 @@
    "cell_type": "markdown",
    "metadata": {
     "papermill": {
-     "duration": 0.0086,
-     "end_time": "2020-04-30T20:47:06.561912",
+     "duration": 0.011216,
+     "end_time": "2020-05-01T07:32:44.098177",
      "exception": false,
-     "start_time": "2020-04-30T20:47:06.553312",
+     "start_time": "2020-05-01T07:32:44.086961",
      "status": "completed"
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@@ -186,10 +186,10 @@
    "execution_count": 7,
    "metadata": {
     "papermill": {
-     "duration": 0.58492,
-     "end_time": "2020-04-30T20:47:07.155487",
+     "duration": 0.68862,
+     "end_time": "2020-05-01T07:32:44.798024",
      "exception": false,
-     "start_time": "2020-04-30T20:47:06.570567",
+     "start_time": "2020-05-01T07:32:44.109404",
      "status": "completed"
     },
     "tags": []
@@ -199,10 +199,10 @@
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        "\n",
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@@ -727,10 +727,10 @@
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    "metadata": {
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-     "end_time": "2020-04-30T20:47:08.241300",
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@@ -744,10 +744,10 @@
    "execution_count": 10,
    "metadata": {
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@@ -757,7 +757,7 @@
      "name": "stdout",
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      "text": [
-      "Most recent test date 2020-04-29 00:00:00\n",
+      "Most recent test date 2020-04-30 00:00:00\n",
       "50 states/territories have data on this date.\n"
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@@ -787,10 +787,10 @@
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@@ -1005,10 +1005,10 @@
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@@ -1037,17 +1037,17 @@
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    "environment_variables": {},
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-   "input_path": "/tmp/7q91sua3/notebooks/covidtracking.ipynb",
+   "input_path": "/tmp/amwam5jr/notebooks/covidtracking.ipynb",
    "output_path": "runs/covidtracking.run.ipynb",
    "parameters": {
-    "atlas_path": "/tmp/7q91sua3/data/atlas",
-    "data_path": "/tmp/7q91sua3/data/covidtracking"
+    "atlas_path": "/tmp/amwam5jr/data/atlas",
+    "data_path": "/tmp/amwam5jr/data/covidtracking"
    },
-   "start_time": "2020-04-30T20:47:04.617411",
+   "start_time": "2020-05-01T07:32:41.403108",
    "version": "1.1.0"
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diff --git a/runs/openzh-covid-19.run.ipynb b/runs/openzh-covid-19.run.ipynb
index e354897f4..f0ca97f69 100644
--- a/runs/openzh-covid-19.run.ipynb
+++ b/runs/openzh-covid-19.run.ipynb
@@ -8,10 +8,10 @@
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@@ -30,10 +30,10 @@
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      "status": "completed"
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@@ -58,10 +58,10 @@
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      "status": "completed"
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@@ -83,10 +83,10 @@
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-     "end_time": "2020-04-30T20:47:28.852440",
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      "status": "completed"
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@@ -97,9 +97,9 @@
    "source": [
     "# Parameters\n",
     "save_figures = True\n",
-    "data_path = \"/tmp/hdr_l3py/data/openzh-covid-19\"\n",
+    "data_path = \"/tmp/keitlsw3/data/openzh-covid-19\"\n",
     "figures_path = \"figures\"\n",
-    "atlas_path = \"/tmp/hdr_l3py/data/atlas\"\n"
+    "atlas_path = \"/tmp/keitlsw3/data/atlas\"\n"
    ]
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   {
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@@ -134,10 +134,10 @@
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@@ -158,10 +158,10 @@
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+     "start_time": "2020-05-01T07:32:59.959317",
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-     "end_time": "2020-04-30T20:47:30.415540",
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      "exception": false,
-     "start_time": "2020-04-30T20:47:30.406135",
+     "start_time": "2020-05-01T07:33:01.374303",
      "status": "completed"
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@@ -198,10 +198,10 @@
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      "exception": false,
-     "start_time": "2020-04-30T20:47:30.423761",
+     "start_time": "2020-05-01T07:33:01.391979",
      "status": "completed"
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@@ -211,10 +211,10 @@
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-       "    const outputDiv = document.getElementById(\"altair-viz-16a73d512e8b41ba81e41eeacee94b6c\");\n",
+       "    const outputDiv = document.getElementById(\"altair-viz-db6f041339bc4e0c96ddd3789d31b2a8\");\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",
@@ -400,7 +400,7 @@
        "        .catch(showError)\n",
        "        .then(() => displayChart(vegaEmbed));\n",
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-- 
GitLab