Biokepi API : Biokepi_run_environment.Workflow_utilities.Cat.cat

let cat_folder ~host
      ~(run_program : Machine.Make_fun.t)
      ?(depends_on=[]) ~files_gzipped ~folder ~destination = 
    let deps = depends_on in
    let open KEDSL in
    let name = "cat-folder-" ^ Filename.quote folder in
    let edges =
      on_failure_activate (Remove.path_on_host ~host destination)
      :: List.map ~f:depends_on deps in
    if files_gzipped then (
      workflow_node (single_file destination ~host)
        ~edges ~name
        ~make:(
          run_program ~name
            Program.(
              shf "gunzip -c %s/* > %s" (Filename.quote folder)
                (Filename.quote destination)))
    ) else (
      workflow_node
        (single_file destination ~host)
        ~edges ~name
        ~make:(
          run_program ~name
            Program.(
              shf "cat %s/* > %s" (Filename.quote folder) (Filename.quote destination)))
    )