search

mskcc / pluto-cwl

CWL workflows for helix filter scripts
1 stars 6 forks source link

Ultron prototype #40

Closed stevekm closed 3 years ago

stevekm commented 3 years ago

@allanbolipata note that I renamed the primary CWL to samples_fillout_index_workflow.cwl and updated the input schema to 

inputs:
  sample_ids:
    type:
        type: array
        items: string
  bam_files:
    type:
        type: array
        items: File
    secondaryFiles:
        - ^.bai
  maf_files:
    type:
      type: array
      items: File
  unindexed_bam_files:
    type:
      type: array
      items: File
  unindexed_sample_ids:
    type:
      type: array
      items: string
  unindexed_maf_files:
    type:
      type: array
      items: File

  ref_fasta:
    type: File
    secondaryFiles:
      - .amb
      - .ann
      - .bwt
      - .pac
      - .sa
      - .fai
      - ^.dict