Facing an issue while running a private Omics workflow.
Error Message: Missing workflow parameters: BamstatsWorkflow.bam_input, BamstatsWorkflow.mem_gb
The workflow, input and parameter files can be obtained from the link below
Private workflow link: https://github.com/openwdl/learn-wdl/tree/master/3_genomic_tool_pipelines/1_bamstats
Workflow Parameters (in a JSON file):
{ "BamstatsWorkflow.mem_gb": "10",
"BamstatsWorkflow.bam_input": "s3://omics-us-east-1/workflowbamstats/input.bam"
}
My queries related to the incident above -
- I am running this workflow on the console (UI). Does this have to be run on the CLI instead?
- Do we need to install any dependent tools, before we run this workflow?
- If we have to install them, how it can it be done and how do we set policies for that?
- Can you provide a WDL, Nextflow, CWL workflow setup user manual?