2 mainītis faili ar 2 papildinājumiem un 2 dzēšanām
+ 1
- 1
inputs
Parādīt failu
| "{{ project_name }}.dbsnp_dir": "{{ dbsnp_dir }}", | "{{ project_name }}.dbsnp_dir": "{{ dbsnp_dir }}", | ||||
| "{{ project_name }}.dbmills_dir": "{{ dbmills_dir }}", | "{{ project_name }}.dbmills_dir": "{{ dbmills_dir }}", | ||||
| "{{ project_name }}.db_mills": "{{ db_mills }}", | "{{ project_name }}.db_mills": "{{ db_mills }}", | ||||
| "{{ project_name }}.varscan_docker": "{{ varscan_docker }}", | |||||
| "{{ project_name }}.muse_docker": "{{ muse_docker }}", | |||||
| "{{ project_name }}.annovar_docker": "{{ annovar_docker }}", | "{{ project_name }}.annovar_docker": "{{ annovar_docker }}", | ||||
| "{{ project_name }}.maftools_docker": "{{ maftools_docker }}", | "{{ project_name }}.maftools_docker": "{{ maftools_docker }}", | ||||
| "{{ project_name }}.database": "{{ database }}", | "{{ project_name }}.database": "{{ database }}", |
+ 1
- 1
tasks/muse.wdl
Parādīt failu
| command <<< | command <<< | ||||
| ./MuSE call –O ${sample} –f ${ref_dir}/${fasta} ${tumor_bam} ${normal_bam} | ./MuSE call –O ${sample} –f ${ref_dir}/${fasta} ${tumor_bam} ${normal_bam} | ||||
| ./MuSE sump -I ${sample}.MuSE.txt -E –O ${sample}.MuSE.TN.vcf –D | |||||
| ./MuSE sump -I ${sample}.MuSE.txt -E –O ${sample}.MuSE.TN.vcf –D ${dbsnp_dir}/${dbsnp} | |||||
| >>> | >>> | ||||
| runtime { | runtime { |
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