更新 'workflow.wdl'

workflow.wdl

@@ -207,20 +207,6 @@ call bcftools.bcftools as TNscope_bcftools {
 	disk_size=disk_size
 }
 
-call manta_calling.manta_calling as manta_calling{
-	input:
-		tumor_bam = Sentieon_BQSR_tumor.recaled_bam,
-		tumor_bam_bai = Sentieon_BQSR_tumor.recaled_bam_index,
-		normal_bam = Sentieon_BQSR_normal.recaled_bam,
-		normal_bam_bai = Sentieon_BQSR_normal.recaled_bam_index,
-		ref_fasta = ref_fasta,
-		ref_dir = ref_fasta_dir,
-		sample_id = sample_id,
-		docker = docker_manta,
-		cluster_config = cluster_config,
-		disk_size = disk_size
-
-}
 
 call strelka_calling.strelka_calling as strelka_calling{
 	input:
@@ -231,8 +217,6 @@ call strelka_calling.strelka_calling as strelka_calling{
 		ref_fasta = ref_fasta,
 		ref_dir = ref_fasta_dir,
 		sample_id = sample_id,
-		manta_indel_vcf = manta_calling.manta_indel_vcf,
-		manta_indel_vcf_index = manta_calling.manta_indel_vcf_index,
 		
 		docker=docker_strelka,
 		cluster_config=cluster_config,