sig   module File :     sig type t = Biokepi_run_environment.Common.KEDSL.file_workflow end   type json = Yojson.Basic.json   type fastq_gz = Fastq_gz   type fastq = Fastq   type fastq_sample = Fastq_sample   type bam =       Biokepi_run_environment.Common.KEDSL.bam_file       Biokepi_run_environment.Common.KEDSL.workflow_node   type bam_pair = Bam_pair   type vcf = Vcf   type gtf = Gtf   type seq2hla_hla_types = Seq2HLA_hla_types   type optitype_hla_types = Optitype_hla_types   type somatic = {     normal : Biokepi_pipeline_edsl.Pipeline.bam;     tumor : Biokepi_pipeline_edsl.Pipeline.bam;   }   type germline = Biokepi_pipeline_edsl.Pipeline.bam   type fastq_sample_info = { sample_name : string; fragment_id : string; }   module Variant_caller :     sig       type _ input =           Somatic :             Biokepi_pipeline_edsl.Pipeline.somatic -> Biokepi_pipeline_edsl.Pipeline.somatic                                                       Biokepi_pipeline_edsl.Pipeline.Variant_caller.input         | Germline :             Biokepi_pipeline_edsl.Pipeline.germline -> Biokepi_pipeline_edsl.Pipeline.germline                                                        Biokepi_pipeline_edsl.Pipeline.Variant_caller.input       type 'a t = {         name : string;         configuration_json : Biokepi_pipeline_edsl.Pipeline.json;         configuration_name : string;         make_target :           run_with:Biokepi_run_environment.Machine.t ->           input:'a Biokepi_pipeline_edsl.Pipeline.Variant_caller.input ->           result_prefix:string ->           ?more_edges:Biokepi_run_environment.Common.KEDSL.workflow_edge list ->           unit ->           Biokepi_run_environment.Common.KEDSL.vcf_file           Biokepi_run_environment.Common.KEDSL.workflow_node;       }     end   type metadata_spec =       [ `Add_tags of string list | `Add_tags_rec of string list ]   type _ t =       Fastq_gz :         Biokepi_pipeline_edsl.Pipeline.File.t -> Biokepi_pipeline_edsl.Pipeline.fastq_gz                                                  Biokepi_pipeline_edsl.Pipeline.t     | Fastq :         Biokepi_pipeline_edsl.Pipeline.File.t -> Biokepi_pipeline_edsl.Pipeline.fastq                                                  Biokepi_pipeline_edsl.Pipeline.t     | Bam_sample : string *         Biokepi_pipeline_edsl.Pipeline.bam -> Biokepi_pipeline_edsl.Pipeline.bam                                               Biokepi_pipeline_edsl.Pipeline.t     | Bam_to_fastq : [ `Paired | `Single ] *         Biokepi_pipeline_edsl.Pipeline.bam Biokepi_pipeline_edsl.Pipeline.t ->          Biokepi_pipeline_edsl.Pipeline.fastq_sample         Biokepi_pipeline_edsl.Pipeline.t     | Paired_end_sample : Biokepi_pipeline_edsl.Pipeline.fastq_sample_info *         Biokepi_pipeline_edsl.Pipeline.fastq Biokepi_pipeline_edsl.Pipeline.t *         Biokepi_pipeline_edsl.Pipeline.fastq Biokepi_pipeline_edsl.Pipeline.t ->          Biokepi_pipeline_edsl.Pipeline.fastq_sample         Biokepi_pipeline_edsl.Pipeline.t     | Single_end_sample : Biokepi_pipeline_edsl.Pipeline.fastq_sample_info *         Biokepi_pipeline_edsl.Pipeline.fastq Biokepi_pipeline_edsl.Pipeline.t ->          Biokepi_pipeline_edsl.Pipeline.fastq_sample         Biokepi_pipeline_edsl.Pipeline.t     | Gunzip_concat :         Biokepi_pipeline_edsl.Pipeline.fastq_gz         Biokepi_pipeline_edsl.Pipeline.t list -> Biokepi_pipeline_edsl.Pipeline.fastq                                                  Biokepi_pipeline_edsl.Pipeline.t     | Concat_text :         Biokepi_pipeline_edsl.Pipeline.fastq Biokepi_pipeline_edsl.Pipeline.t         list -> Biokepi_pipeline_edsl.Pipeline.fastq                 Biokepi_pipeline_edsl.Pipeline.t     | Star : Biokepi_bfx_tools.Star.Configuration.Align.t *         Biokepi_pipeline_edsl.Pipeline.fastq_sample         Biokepi_pipeline_edsl.Pipeline.t -> Biokepi_pipeline_edsl.Pipeline.bam                                             Biokepi_pipeline_edsl.Pipeline.t     | Hisat : Biokepi_bfx_tools.Hisat.Configuration.t *         Biokepi_pipeline_edsl.Pipeline.fastq_sample         Biokepi_pipeline_edsl.Pipeline.t -> Biokepi_pipeline_edsl.Pipeline.bam                                             Biokepi_pipeline_edsl.Pipeline.t     | Stringtie : Biokepi_bfx_tools.Stringtie.Configuration.t *         Biokepi_pipeline_edsl.Pipeline.bam Biokepi_pipeline_edsl.Pipeline.t ->          Biokepi_pipeline_edsl.Pipeline.gtf Biokepi_pipeline_edsl.Pipeline.t     | Bwa : Biokepi_bfx_tools.Bwa.Configuration.Aln.t *         Biokepi_pipeline_edsl.Pipeline.fastq_sample         Biokepi_pipeline_edsl.Pipeline.t -> Biokepi_pipeline_edsl.Pipeline.bam                                             Biokepi_pipeline_edsl.Pipeline.t     | Bwa_mem : Biokepi_bfx_tools.Bwa.Configuration.Mem.t *         Biokepi_pipeline_edsl.Pipeline.fastq_sample         Biokepi_pipeline_edsl.Pipeline.t -> Biokepi_pipeline_edsl.Pipeline.bam                                             Biokepi_pipeline_edsl.Pipeline.t     | Mosaik :         Biokepi_pipeline_edsl.Pipeline.fastq_sample         Biokepi_pipeline_edsl.Pipeline.t -> Biokepi_pipeline_edsl.Pipeline.bam                                             Biokepi_pipeline_edsl.Pipeline.t     | Gatk_indel_realigner :         Biokepi_bfx_tools.Gatk.Configuration.indel_realigner *         Biokepi_pipeline_edsl.Pipeline.bam Biokepi_pipeline_edsl.Pipeline.t ->          Biokepi_pipeline_edsl.Pipeline.bam Biokepi_pipeline_edsl.Pipeline.t     | Picard_mark_duplicates :         Biokepi_bfx_tools.Picard.Mark_duplicates_settings.t *         Biokepi_pipeline_edsl.Pipeline.bam Biokepi_pipeline_edsl.Pipeline.t ->          Biokepi_pipeline_edsl.Pipeline.bam Biokepi_pipeline_edsl.Pipeline.t     | Gatk_bqsr :         (Biokepi_bfx_tools.Gatk.Configuration.bqsr *          Biokepi_pipeline_edsl.Pipeline.bam Biokepi_pipeline_edsl.Pipeline.t) ->          Biokepi_pipeline_edsl.Pipeline.bam Biokepi_pipeline_edsl.Pipeline.t     | Bam_pair :         Biokepi_pipeline_edsl.Pipeline.bam Biokepi_pipeline_edsl.Pipeline.t *         Biokepi_pipeline_edsl.Pipeline.bam Biokepi_pipeline_edsl.Pipeline.t ->          Biokepi_pipeline_edsl.Pipeline.bam_pair         Biokepi_pipeline_edsl.Pipeline.t     | Somatic_variant_caller :         Biokepi_pipeline_edsl.Pipeline.somatic         Biokepi_pipeline_edsl.Pipeline.Variant_caller.t *         Biokepi_pipeline_edsl.Pipeline.bam_pair         Biokepi_pipeline_edsl.Pipeline.t -> Biokepi_pipeline_edsl.Pipeline.vcf                                             Biokepi_pipeline_edsl.Pipeline.t     | Germline_variant_caller :         Biokepi_pipeline_edsl.Pipeline.germline         Biokepi_pipeline_edsl.Pipeline.Variant_caller.t *         Biokepi_pipeline_edsl.Pipeline.bam Biokepi_pipeline_edsl.Pipeline.t ->          Biokepi_pipeline_edsl.Pipeline.vcf Biokepi_pipeline_edsl.Pipeline.t     | Seq2HLA :         Biokepi_pipeline_edsl.Pipeline.fastq_sample         Biokepi_pipeline_edsl.Pipeline.t -> Biokepi_pipeline_edsl.Pipeline.seq2hla_hla_types                                             Biokepi_pipeline_edsl.Pipeline.t     | Optitype :         ([ `DNA | `RNA ] *          Biokepi_pipeline_edsl.Pipeline.fastq_sample          Biokepi_pipeline_edsl.Pipeline.t) -> Biokepi_pipeline_edsl.Pipeline.optitype_hla_types                                               Biokepi_pipeline_edsl.Pipeline.t     | With_metadata : Biokepi_pipeline_edsl.Pipeline.metadata_spec *         'a Biokepi_pipeline_edsl.Pipeline.t -> 'a                                                Biokepi_pipeline_edsl.Pipeline.t   module Construct :     sig       type input_fastq =           [ `Paired_end of               Biokepi_pipeline_edsl.Pipeline.File.t list *               Biokepi_pipeline_edsl.Pipeline.File.t list           | `Single_end of Biokepi_pipeline_edsl.Pipeline.File.t list ]       val input_fastq :         dataset:string ->         Biokepi_pipeline_edsl.Pipeline.Construct.input_fastq ->         Biokepi_pipeline_edsl.Pipeline.fastq_sample         Biokepi_pipeline_edsl.Pipeline.t       val bam :         dataset:string ->         Biokepi_pipeline_edsl.Pipeline.bam ->         Biokepi_pipeline_edsl.Pipeline.bam Biokepi_pipeline_edsl.Pipeline.t       val bam_to_fastq :         [ `Paired | `Single ] ->         Biokepi_pipeline_edsl.Pipeline.bam Biokepi_pipeline_edsl.Pipeline.t ->         Biokepi_pipeline_edsl.Pipeline.fastq_sample         Biokepi_pipeline_edsl.Pipeline.t       val bwa :         ?configuration:Biokepi_bfx_tools.Bwa.Configuration.Aln.t ->         Biokepi_pipeline_edsl.Pipeline.fastq_sample         Biokepi_pipeline_edsl.Pipeline.t ->         Biokepi_pipeline_edsl.Pipeline.bam Biokepi_pipeline_edsl.Pipeline.t       val bwa_aln :         ?configuration:Biokepi_bfx_tools.Bwa.Configuration.Aln.t ->         Biokepi_pipeline_edsl.Pipeline.fastq_sample         Biokepi_pipeline_edsl.Pipeline.t ->         Biokepi_pipeline_edsl.Pipeline.bam Biokepi_pipeline_edsl.Pipeline.t       val bwa_mem :         ?configuration:Biokepi_bfx_tools.Bwa.Configuration.Mem.t ->         Biokepi_pipeline_edsl.Pipeline.fastq_sample         Biokepi_pipeline_edsl.Pipeline.t ->         Biokepi_pipeline_edsl.Pipeline.bam Biokepi_pipeline_edsl.Pipeline.t       val mosaik :         Biokepi_pipeline_edsl.Pipeline.fastq_sample         Biokepi_pipeline_edsl.Pipeline.t ->         Biokepi_pipeline_edsl.Pipeline.bam Biokepi_pipeline_edsl.Pipeline.t       val star :         ?configuration:Biokepi_bfx_tools.Star.Configuration.Align.t ->         Biokepi_pipeline_edsl.Pipeline.fastq_sample         Biokepi_pipeline_edsl.Pipeline.t ->         Biokepi_pipeline_edsl.Pipeline.bam Biokepi_pipeline_edsl.Pipeline.t       val hisat :         ?configuration:Biokepi_bfx_tools.Hisat.Configuration.t ->         Biokepi_pipeline_edsl.Pipeline.fastq_sample         Biokepi_pipeline_edsl.Pipeline.t ->         Biokepi_pipeline_edsl.Pipeline.bam Biokepi_pipeline_edsl.Pipeline.t       val stringtie :         ?configuration:Biokepi_bfx_tools.Stringtie.Configuration.t ->         Biokepi_pipeline_edsl.Pipeline.bam Biokepi_pipeline_edsl.Pipeline.t ->         Biokepi_pipeline_edsl.Pipeline.gtf Biokepi_pipeline_edsl.Pipeline.t       val gatk_indel_realigner :         ?configuration:Biokepi_bfx_tools.Gatk.Configuration.indel_realigner ->         Biokepi_pipeline_edsl.Pipeline.bam Biokepi_pipeline_edsl.Pipeline.t ->         Biokepi_pipeline_edsl.Pipeline.bam Biokepi_pipeline_edsl.Pipeline.t       val picard_mark_duplicates :         ?settings:Biokepi_bfx_tools.Picard.Mark_duplicates_settings.t ->         Biokepi_pipeline_edsl.Pipeline.bam Biokepi_pipeline_edsl.Pipeline.t ->         Biokepi_pipeline_edsl.Pipeline.bam Biokepi_pipeline_edsl.Pipeline.t       val gatk_bqsr :         ?configuration:Biokepi_bfx_tools.Gatk.Configuration.bqsr ->         Biokepi_pipeline_edsl.Pipeline.bam Biokepi_pipeline_edsl.Pipeline.t ->         Biokepi_pipeline_edsl.Pipeline.bam Biokepi_pipeline_edsl.Pipeline.t       val pair :         normal:Biokepi_pipeline_edsl.Pipeline.bam                Biokepi_pipeline_edsl.Pipeline.t ->         tumor:Biokepi_pipeline_edsl.Pipeline.bam               Biokepi_pipeline_edsl.Pipeline.t ->         Biokepi_pipeline_edsl.Pipeline.bam_pair         Biokepi_pipeline_edsl.Pipeline.t       val germline_variant_caller :         Biokepi_pipeline_edsl.Pipeline.germline         Biokepi_pipeline_edsl.Pipeline.Variant_caller.t ->         Biokepi_pipeline_edsl.Pipeline.bam Biokepi_pipeline_edsl.Pipeline.t ->         Biokepi_pipeline_edsl.Pipeline.vcf Biokepi_pipeline_edsl.Pipeline.t       val gatk_haplotype_caller :         Biokepi_pipeline_edsl.Pipeline.bam Biokepi_pipeline_edsl.Pipeline.t ->         Biokepi_pipeline_edsl.Pipeline.vcf Biokepi_pipeline_edsl.Pipeline.t       val somatic_variant_caller :         Biokepi_pipeline_edsl.Pipeline.somatic         Biokepi_pipeline_edsl.Pipeline.Variant_caller.t ->         Biokepi_pipeline_edsl.Pipeline.bam_pair         Biokepi_pipeline_edsl.Pipeline.t ->         Biokepi_pipeline_edsl.Pipeline.vcf Biokepi_pipeline_edsl.Pipeline.t       val mutect :         ?configuration:Biokepi_bfx_tools.Mutect.Configuration.t ->         Biokepi_pipeline_edsl.Pipeline.bam_pair         Biokepi_pipeline_edsl.Pipeline.t ->         Biokepi_pipeline_edsl.Pipeline.vcf Biokepi_pipeline_edsl.Pipeline.t       val mutect2 :         ?configuration:Biokepi_bfx_tools.Gatk.Configuration.Mutect2.t ->         Biokepi_pipeline_edsl.Pipeline.bam_pair         Biokepi_pipeline_edsl.Pipeline.t ->         Biokepi_pipeline_edsl.Pipeline.vcf Biokepi_pipeline_edsl.Pipeline.t       val somaticsniper :         ?configuration:Biokepi_bfx_tools.Somaticsniper.Configuration.t ->         Biokepi_pipeline_edsl.Pipeline.bam_pair         Biokepi_pipeline_edsl.Pipeline.t ->         Biokepi_pipeline_edsl.Pipeline.vcf Biokepi_pipeline_edsl.Pipeline.t       val varscan_somatic :         ?adjust_mapq:int ->         Biokepi_pipeline_edsl.Pipeline.bam_pair         Biokepi_pipeline_edsl.Pipeline.t ->         Biokepi_pipeline_edsl.Pipeline.vcf Biokepi_pipeline_edsl.Pipeline.t       val strelka :         configuration:Biokepi_bfx_tools.Strelka.Configuration.t ->         Biokepi_pipeline_edsl.Pipeline.bam_pair         Biokepi_pipeline_edsl.Pipeline.t ->         Biokepi_pipeline_edsl.Pipeline.vcf Biokepi_pipeline_edsl.Pipeline.t       val virmid :         configuration:Biokepi_bfx_tools.Virmid.Configuration.t ->         Biokepi_pipeline_edsl.Pipeline.bam_pair         Biokepi_pipeline_edsl.Pipeline.t ->         Biokepi_pipeline_edsl.Pipeline.vcf Biokepi_pipeline_edsl.Pipeline.t       val muse :         configuration:Biokepi_bfx_tools.Muse.Configuration.t ->         Biokepi_pipeline_edsl.Pipeline.bam_pair         Biokepi_pipeline_edsl.Pipeline.t ->         Biokepi_pipeline_edsl.Pipeline.vcf Biokepi_pipeline_edsl.Pipeline.t       val seq2hla :         Biokepi_pipeline_edsl.Pipeline.fastq_sample         Biokepi_pipeline_edsl.Pipeline.t ->         Biokepi_pipeline_edsl.Pipeline.seq2hla_hla_types         Biokepi_pipeline_edsl.Pipeline.t       val optitype :         [ `DNA | `RNA ] ->         Biokepi_pipeline_edsl.Pipeline.fastq_sample         Biokepi_pipeline_edsl.Pipeline.t ->         Biokepi_pipeline_edsl.Pipeline.optitype_hla_types         Biokepi_pipeline_edsl.Pipeline.t       val add_tags :         ?recursively:bool ->         string list ->         'a Biokepi_pipeline_edsl.Pipeline.t ->         'a Biokepi_pipeline_edsl.Pipeline.t     end   val to_file_prefix :     ?read:[ `R1 of string | `R2 of string ] -> 'a t -> string   val to_json : 'a t -> Biokepi_pipeline_edsl.Pipeline.json   module Compiler :     sig       type 'a pipeline = 'a Biokepi_pipeline_edsl.Pipeline.t       type workflow_option_failure_mode =           [ `Fail_if_not_happening | `Silent ]       type workflow_option =           [ `Map_reduce of [ `Gatk_indel_realigner ]           | `Multi_sample_indel_realignment of               Biokepi_pipeline_edsl.Pipeline.Compiler.workflow_option_failure_mode           | `Parallel_alignment_over_fastq_fragments of               [ `Bwa | `Bwa_mem | `Hisat | `Mosaik | `Star ] list *               Biokepi_pipeline_edsl.Pipeline.Compiler.workflow_option_failure_mode ]       type t = {         reference_build : Biokepi_run_environment.Reference_genome.name;         work_dir : string;         machine : Biokepi_run_environment.Machine.t;         options :           Biokepi_pipeline_edsl.Pipeline.Compiler.workflow_option list;         wrap_bam_node :           Biokepi_pipeline_edsl.Pipeline.bam           Biokepi_pipeline_edsl.Pipeline.Compiler.pipeline ->           Biokepi_run_environment.Common.KEDSL.bam_file           Biokepi_run_environment.Common.KEDSL.workflow_node ->           Biokepi_run_environment.Common.KEDSL.bam_file           Biokepi_run_environment.Common.KEDSL.workflow_node;         wrap_vcf_node :           Biokepi_pipeline_edsl.Pipeline.vcf           Biokepi_pipeline_edsl.Pipeline.Compiler.pipeline ->           Biokepi_run_environment.Common.KEDSL.vcf_file           Biokepi_run_environment.Common.KEDSL.workflow_node ->           Biokepi_run_environment.Common.KEDSL.vcf_file           Biokepi_run_environment.Common.KEDSL.workflow_node;         wrap_gtf_node :           Biokepi_pipeline_edsl.Pipeline.gtf           Biokepi_pipeline_edsl.Pipeline.Compiler.pipeline ->           Biokepi_run_environment.Common.KEDSL.single_file           Biokepi_run_environment.Common.KEDSL.workflow_node ->           Biokepi_run_environment.Common.KEDSL.single_file           Biokepi_run_environment.Common.KEDSL.workflow_node;       }       val create :         ?wrap_bam_node:(Biokepi_pipeline_edsl.Pipeline.bam                         Biokepi_pipeline_edsl.Pipeline.Compiler.pipeline ->                         Biokepi_run_environment.Common.KEDSL.bam_file                         Biokepi_run_environment.Common.KEDSL.workflow_node ->                         Biokepi_run_environment.Common.KEDSL.bam_file                         Biokepi_run_environment.Common.KEDSL.workflow_node) ->         ?wrap_vcf_node:(Biokepi_pipeline_edsl.Pipeline.vcf                         Biokepi_pipeline_edsl.Pipeline.Compiler.pipeline ->                         Biokepi_run_environment.Common.KEDSL.vcf_file                         Biokepi_run_environment.Common.KEDSL.workflow_node ->                         Biokepi_run_environment.Common.KEDSL.vcf_file                         Biokepi_run_environment.Common.KEDSL.workflow_node) ->         ?wrap_gtf_node:(Biokepi_pipeline_edsl.Pipeline.gtf                         Biokepi_pipeline_edsl.Pipeline.Compiler.pipeline ->                         Biokepi_run_environment.Common.KEDSL.single_file                         Biokepi_run_environment.Common.KEDSL.workflow_node ->                         Biokepi_run_environment.Common.KEDSL.single_file                         Biokepi_run_environment.Common.KEDSL.workflow_node) ->         ?options:Biokepi_pipeline_edsl.Pipeline.Compiler.workflow_option list ->         reference_build:Biokepi_run_environment.Reference_genome.name ->         work_dir:string ->         machine:Biokepi_run_environment.Machine.t ->         unit -> Biokepi_pipeline_edsl.Pipeline.Compiler.t       val has_option :         Biokepi_pipeline_edsl.Pipeline.Compiler.t ->         (Biokepi_pipeline_edsl.Pipeline.Compiler.workflow_option -> bool) ->         bool       val apply_with_metadata :         metadata_spec:[< `Add_tags of string list                        | `Add_tags_rec of string list ] ->         (< is_done : Biokepi_run_environment.Common.KEDSL.Condition.t option;            .. >          as 'a)         Biokepi_run_environment.Common.KEDSL.product         Biokepi_run_environment.Common.KEDSL.workflow_node ->         'a Biokepi_run_environment.Common.KEDSL.product         Biokepi_run_environment.Common.KEDSL.workflow_node       val fastq_step :         read:[ `R1 of string | `R2 of string ] ->         compiler:Biokepi_pipeline_edsl.Pipeline.Compiler.t ->         Biokepi_pipeline_edsl.Pipeline.fastq         Biokepi_pipeline_edsl.Pipeline.Compiler.pipeline ->         Biokepi_pipeline_edsl.Pipeline.File.t       val fastq_sample_step :         compiler:Biokepi_pipeline_edsl.Pipeline.Compiler.t ->         Biokepi_pipeline_edsl.Pipeline.fastq_sample         Biokepi_pipeline_edsl.Pipeline.Compiler.pipeline ->         < escaped_sample_name : string; fragment_id : string option;           fragment_id_forced : string;           is_done : Biokepi_run_environment.Common.KEDSL.Condition.t option;           paths : string * string option;           r1 : Biokepi_run_environment.Common.KEDSL.single_file;           r2 : Biokepi_run_environment.Common.KEDSL.single_file option;           sample_name : string >         Biokepi_run_environment.Common.KEDSL.product         Biokepi_run_environment.Common.KEDSL.workflow_node       val compile_aligner_step :         compiler:Biokepi_pipeline_edsl.Pipeline.Compiler.t ->         Biokepi_pipeline_edsl.Pipeline.bam         Biokepi_pipeline_edsl.Pipeline.Compiler.pipeline ->         Biokepi_run_environment.Common.KEDSL.bam_file         Biokepi_run_environment.Common.KEDSL.workflow_node       val compile_bam_pair :         compiler:Biokepi_pipeline_edsl.Pipeline.Compiler.t ->         Biokepi_pipeline_edsl.Pipeline.bam_pair         Biokepi_pipeline_edsl.Pipeline.Compiler.pipeline ->         [ `Normal of             Biokepi_run_environment.Common.KEDSL.bam_file             Biokepi_run_environment.Common.KEDSL.workflow_node ] *         [ `Tumor of             Biokepi_run_environment.Common.KEDSL.bam_file             Biokepi_run_environment.Common.KEDSL.workflow_node ] *         [ `Pipeline of             Biokepi_pipeline_edsl.Pipeline.bam_pair             Biokepi_pipeline_edsl.Pipeline.Compiler.pipeline ]       val compile_variant_caller_step :         compiler:Biokepi_pipeline_edsl.Pipeline.Compiler.t ->         Biokepi_pipeline_edsl.Pipeline.vcf         Biokepi_pipeline_edsl.Pipeline.Compiler.pipeline ->         Biokepi_run_environment.Common.KEDSL.vcf_file         Biokepi_run_environment.Common.KEDSL.product         Biokepi_run_environment.Common.KEDSL.product         Biokepi_run_environment.Common.KEDSL.workflow_node       val compile_gtf_step :         compiler:Biokepi_pipeline_edsl.Pipeline.Compiler.t ->         Biokepi_pipeline_edsl.Pipeline.gtf         Biokepi_pipeline_edsl.Pipeline.Compiler.pipeline ->         < 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.product         Biokepi_run_environment.Common.KEDSL.product         Biokepi_run_environment.Common.KEDSL.workflow_node       val seq2hla_hla_types_step :         compiler:Biokepi_pipeline_edsl.Pipeline.Compiler.t ->         Biokepi_pipeline_edsl.Pipeline.seq2hla_hla_types         Biokepi_pipeline_edsl.Pipeline.Compiler.pipeline ->         Biokepi_bfx_tools.Seq2HLA.product         Biokepi_run_environment.Common.KEDSL.workflow_node       val optitype_hla_types_step :         compiler:Biokepi_pipeline_edsl.Pipeline.Compiler.t ->         Biokepi_pipeline_edsl.Pipeline.optitype_hla_types         Biokepi_pipeline_edsl.Pipeline.Compiler.pipeline ->         Biokepi_bfx_tools.Optitype.product         Biokepi_run_environment.Common.KEDSL.workflow_node     end end