renku run papermill -p ts_folder ./data/covid-19_jhu-csse/ -p wb_path...

renku run papermill -p ts_folder ./data/covid-19_jhu-csse/ -p wb_path ./data/worldbank/SP.POP.TOTL.zip -p out_folder ./data/covid-19_rates/ --inject-paths notebooks/ToRates.ipynb runs/ToRates.run.ipynb

.gitattributes

@@ -2,3 +2,4 @@ data/covid-19_jhu-csse/time_series_19-covid-Confirmed.csv filter=lfs diff=lfs me
 data/covid-19_jhu-csse/time_series_19-covid-Deaths.csv filter=lfs diff=lfs merge=lfs -text
 data/covid-19_jhu-csse/time_series_19-covid-Recovered.csv filter=lfs diff=lfs merge=lfs -text
 data/worldbank/SP.POP.TOTL.zip filter=lfs diff=lfs merge=lfs -text
+data/covid-19_rates/** filter=lfs diff=lfs merge=lfs -text

.renku/workflow/a38f8d703e0c4c55a2e3f49bbf15466e_papermill.cwl

+arguments: []
+baseCommand:
+- papermill
+class: CommandLineTool
+cwlVersion: v1.0
+hints: []
+inputs:
+  input_1:
+    default: ts_folder
+    inputBinding:
+      position: 1
+      prefix: -p
+      separate: true
+      shellQuote: true
+    streamable: false
+    type: string
+  input_2:
+    default:
+      class: Directory
+      listing: []
+      path: ../../data/covid-19_jhu-csse
+    inputBinding:
+      position: 2
+      separate: true
+      shellQuote: true
+    streamable: false
+    type: Directory
+  input_3:
+    default: wb_path
+    inputBinding:
+      position: 3
+      prefix: -p
+      separate: true
+      shellQuote: true
+    streamable: false
+    type: string
+  input_4:
+    default:
+      class: File
+      path: ../../data/worldbank/SP.POP.TOTL.zip
+    inputBinding:
+      position: 4
+      separate: true
+      shellQuote: true
+    streamable: false
+    type: File
+  input_5:
+    default: out_folder
+    inputBinding:
+      position: 5
+      prefix: -p
+      separate: true
+      shellQuote: true
+    streamable: false
+    type: string
+  input_6:
+    default: data/covid-19_rates
+    inputBinding:
+      position: 6
+      separate: true
+      shellQuote: true
+    streamable: false
+    type: string
+  input_7:
+    default:
+      class: File
+      path: ../../notebooks/ToRates.ipynb
+    inputBinding:
+      position: 7
+      prefix: --inject-paths
+      separate: true
+      shellQuote: true
+    streamable: false
+    type: File
+  input_8:
+    default: runs/ToRates.run.ipynb
+    inputBinding:
+      position: 8
+      separate: true
+      shellQuote: true
+    streamable: false
+    type: string
+outputs:
+  output_0:
+    outputBinding:
+      glob: $(inputs.input_8)
+    streamable: false
+    type: File
+  output_1:
+    outputBinding:
+      glob: $(inputs.input_6)
+    streamable: false
+    type: Directory
+permanentFailCodes: []
+requirements:
+- class: InlineJavascriptRequirement
+- class: InitialWorkDirRequirement
+  listing:
+  - entry: '$({"listing": [], "class": "Directory"})'
+    entryname: runs
+    writable: true
+  - entry: '$({"listing": [], "class": "Directory"})'
+    entryname: data/covid-19_rates
+    writable: true
+  - entry: $(inputs.input_2)
+    entryname: data/covid-19_jhu-csse
+    writable: false
+  - entry: $(inputs.input_4)
+    entryname: data/worldbank/SP.POP.TOTL.zip
+    writable: false
+  - entry: $(inputs.input_7)
+    entryname: notebooks/ToRates.ipynb
+    writable: false
+successCodes: []
+temporaryFailCodes: []