protocol_mapping:
  RNA-seq: sandro_rna_seq

pipelines:
  sandro_rna_seq:
    name: sandro_rna_seq
    path: sandro_rna_seq.py  # relative to this
pipeline_interface.yaml file
    looper_args: True
    arguments:
      "-L": "IU"
      "-T": "gencode_mouse_m13"
      "-E": "/scratch/nv4e/binf-
pipelines/bulk_rna_seq/salmon/pypiper/jyvo_experiment-metadata.yaml"
      "-C": "/scratch/nv4e/binf-
pipelines/bulk_rna_seq/salmon/pypiper/salmon_rna_seq.yaml"
      "-X": "True"
      "-P": "6"
      "-I": sample_name
    resources:
      default:
        file_size: "0"
        cores: "20"
        mem: "120000"