Json format for WDL workflow

[dianacornejo]

Hi @anastazie-dnanexus

Thanks for all the tutorials on UKB-RAP use

I'm very new to WDL and I was wondering how would the json file look for this specific example of the geno_bgen_files/geno_sample_files. Is this a text file that contains the name of one bgen file per line? Can you provide an example of this within the DNAnexus file system?

workflow bgens_qc {
  input {
    Array[File]+ geno_bgen_files
    Array[File]+ geno_sample_files
    Boolean ref_first = true
    File? keep_file
    Array[File] extract_files
    String plink2_options = ""
    String output_prefix
  }

Thanks a lot

[anastazie-dnanexus]

Thank you for your comment. I moved WDL to folder and added JupyterNotebook to generate JSON file with input files. More details in README.