sig
  module Remove = Biokepi_run_environment.Workflow_utilities.Remove
  val empty_vcf : string
  val somatic_on_region :
    run_with:Biokepi_run_environment.Machine.t ->
    ?adjust_mapq:int ->
    normal:Biokepi_run_environment.Common.KEDSL.bam_file
           Biokepi_run_environment.Common.KEDSL.workflow_node ->
    tumor:Biokepi_run_environment.Common.KEDSL.bam_file
          Biokepi_run_environment.Common.KEDSL.workflow_node ->
    result_prefix:string ->
    [< `Chromosome of string
     | `Chromosome_interval of string * int * int
     | `Full ] ->
    < exists : Ketrew_pure.Target.Condition.t;
      is_bigger_than : int -> Ketrew_pure.Target.Condition.t;
      is_done : Biokepi_run_environment.Common.KEDSL.Condition.t option;
      path : string >
    Biokepi_run_environment.Common.KEDSL.workflow_node
  val somatic_map_reduce :
    ?more_edges:Biokepi_run_environment.Common.KEDSL.workflow_edge list ->
    run_with:Biokepi_run_environment.Machine.t ->
    ?adjust_mapq:int ->
    normal:Biokepi_run_environment.Common.KEDSL.bam_file
           Biokepi_run_environment.Common.KEDSL.workflow_node ->
    tumor:Biokepi_run_environment.Common.KEDSL.bam_file
          Biokepi_run_environment.Common.KEDSL.workflow_node ->
    result_prefix:string ->
    unit ->
    < exists : Ketrew_pure.Target.Condition.t;
      is_bigger_than : int -> Ketrew_pure.Target.Condition.t;
      is_done : Biokepi_run_environment.Common.KEDSL.Condition.t option;
      path : string >
    Biokepi_run_environment.Common.KEDSL.workflow_node
end