3 changed files with 2 additions and 2 deletions
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defaults
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| "bcftools_docker": "registry.cn-shanghai.aliyuncs.com/pgx-docker-registry/bcftools:v1.9", | "bcftools_docker": "registry.cn-shanghai.aliyuncs.com/pgx-docker-registry/bcftools:v1.9", | ||||
| "database": "oss://pgx-reference-data/annovar_hg38/", | "database": "oss://pgx-reference-data/annovar_hg38/", | ||||
| "regions": "oss://pgx-reference-data/bed/cbcga/S07604514_Covered.bed", | "regions": "oss://pgx-reference-data/bed/cbcga/S07604514_Covered.bed", | ||||
| "interval_padding": "10", | |||||
| "tnseq_pon": "", | "tnseq_pon": "", | ||||
| "tnscope_pon": "", | "tnscope_pon": "", | ||||
| "cosmic_vcf": "CosmicCodingMuts.hg38.v91.vcf", | "cosmic_vcf": "CosmicCodingMuts.hg38.v91.vcf", |
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inputs
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| "{{ project_name }}.maftools_docker": "{{ maftools_docker }}", | "{{ project_name }}.maftools_docker": "{{ maftools_docker }}", | ||||
| "{{ project_name }}.database": "{{ database }}", | "{{ project_name }}.database": "{{ database }}", | ||||
| "{{ project_name }}.regions": "{{ regions }}", | "{{ project_name }}.regions": "{{ regions }}", | ||||
| "{{ project_name }}.interval_padding": "{{ interval_padding }}", | |||||
| "{{ project_name }}.tnseq_pon": "{{ tnseq_pon }}", | "{{ project_name }}.tnseq_pon": "{{ tnseq_pon }}", | ||||
| "{{ project_name }}.tnscope_pon": "{{ tnscope_pon }}", | "{{ project_name }}.tnscope_pon": "{{ tnscope_pon }}", | ||||
| "{{ project_name }}.cosmic_vcf": "{{ cosmic_vcf }}", | "{{ project_name }}.cosmic_vcf": "{{ cosmic_vcf }}", |
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tasks/TNseq.wdl
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| String docker | String docker | ||||
| String cluster_config | String cluster_config | ||||
| String disk_size | String disk_size | ||||
| command <<< | command <<< | ||||
| set -o pipefail | set -o pipefail | ||||
| set -e | set -e |
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