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workflow.wdl
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| disk_size=disk_size | 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{ | call strelka_calling.strelka_calling as strelka_calling{ | ||||
| input: | input: | ||||
| ref_fasta = ref_fasta, | ref_fasta = ref_fasta, | ||||
| ref_dir = ref_fasta_dir, | ref_dir = ref_fasta_dir, | ||||
| sample_id = sample_id, | 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, | docker=docker_strelka, | ||||
| cluster_config=cluster_config, | cluster_config=cluster_config, |
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