Module Biokepi_bfx_tools.Topiary (.ml)

module Topiary: sig .. end

type output_type = [ `CSV of string | `HTML of string ] 

type predictor_type = [ `NetMHC
       | `NetMHCIIpan
       | `NetMHCcons
       | `NetMHCcons_IEDB
       | `NetMHCpan
       | `NetMHCpan_IEDB
       | `Random
       | `SMM
       | `SMM_IEDB
       | `SMM_PMBEC
       | `SMM_PMBEC_IEDB ] 

val predictor_to_string : [< `NetMHC
        | `NetMHCIIpan
        | `NetMHCcons
        | `NetMHCcons_IEDB
        | `NetMHCpan
        | `NetMHCpan_IEDB
        | `Random
        | `SMM
        | `SMM_IEDB
        | `SMM_PMBEC
        | `SMM_PMBEC_IEDB ] ->
       string

val predictor_to_tool : run_with:Biokepi_run_environment.Machine.t ->
       [> `NetMHC | `NetMHCIIpan | `NetMHCcons | `NetMHCpan ] ->
       (Biokepi_run_environment.Common.KEDSL.phony_workflow *
        Biokepi_run_environment.Common.KEDSL.Program.t)
       option

module Configuration: sig .. end

val run : run_with:Biokepi_run_environment.Machine.t ->
       configuration:Configuration.t ->
       reference_build:string ->
       vcfs:< is_done : Biokepi_run_environment.Common.KEDSL.Condition.t option;
              path : string; .. >
            Biokepi_run_environment.Common.KEDSL.workflow_node list ->
       predictor:[< `NetMHC
                  | `NetMHCIIpan
                  | `NetMHCcons
                  | `NetMHCcons_IEDB
                  | `NetMHCpan
                  | `NetMHCpan_IEDB
                  | `Random
                  | `SMM
                  | `SMM_IEDB
                  | `SMM_PMBEC
                  | `SMM_PMBEC_IEDB
                  > `NetMHC `NetMHCIIpan `NetMHCcons `NetMHCpan ] ->
       alleles_file:< is_done : Biokepi_run_environment.Common.KEDSL.Condition.t
                                option;
                      path : string; .. >
                    Biokepi_run_environment.Common.KEDSL.workflow_node ->
       output:[< `CSV of string | `HTML of string ] ->
       < exists : Ketrew_pure.Target.Condition.t;
         host : Biokepi_run_environment.Common.KEDSL.Host.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