README-Dev.md

In neurogenomics/scFlowExamples: Provide example datsets to run scFlow

Terra Workflow Dev Env Quick Start

Dev Machine

• install Java SDK
• install Docker Tools
• download required Terra .jar files
  • cromwell-XY.jar - execution of WDL scripts
    • use cromwell run mode
    • XY is cromwell version, i.e. 47, etc..
  • womtool.jar - WDL script linter
  • wdltool.jar - generates inputs.json files from WDL scripts
• start Docker daemon

Development

• create WDL script
• create parameters file input.json from WDL
  • java -jar wdltool.jar inputs myWorkflow.wdl > myWorkflow_inputs.json
• execute WDL script with cromwell, i.e.
  • java -jar cromwell-XY.jar run myWorkflow.wdl --inputs myWorkflow_inputs.json

neurogenomics/scFlowExamples documentation built on Dec. 22, 2021, 1:13 a.m.