1 changed files with 1 additions and 9 deletions
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workflow.wdl
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| disk_size=disk_size, | disk_size=disk_size, | ||||
| cluster_config=cluster_config | cluster_config=cluster_config | ||||
| } | } | ||||
| File bam_to_use = corealigner.corealigner_bam | |||||
| } | } | ||||
| if (type == "tumor" && !defined(normal_recaled_bam)) { | |||||
| File bam_to_use = BQSR.recaled_bam | |||||
| } | |||||
| #File bam_to_use = select_first([corealigner.corealigner_bam, BQSR.recaled_bam]) | |||||
| call TNseq.TNseq as TNseq { | call TNseq.TNseq as TNseq { | ||||
| input: | input: | ||||
| SENTIEON_INSTALL_DIR=SENTIEON_INSTALL_DIR, | SENTIEON_INSTALL_DIR=SENTIEON_INSTALL_DIR, |
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