LUYAO REN
4 jaren geleden
2 gewijzigde bestanden met toevoegingen van 9 en 5 verwijderingen
+ 4
- 0
rename.txt
Bestand weergeven
| @@ -0,0 +1,4 @@ | |||
| LCL5_10X_1 LCL5 | |||
| LCL6_10X LCL6 | |||
| LCL7_10X LCL7 | |||
| LCL8_10X LCL8 | |||
+ 5
- 5
tasks/merge_family.wdl
Bestand weergeven
| @@ -14,15 +14,15 @@ | |||
| String disk_size | |||
| command <<< | |||
| opt/rtg-tools/dist/rtg-tools-3.10.1-4d58ead/rtg vcfannotate --relabel=${rename} -i ${LCL5_vcf_gz} -o LCL5.vcf.gz | |||
| /opt/rtg-tools/dist/rtg-tools-3.10.1-4d58ead/rtg vcfannotate --relabel=${rename} -i ${LCL5_vcf_gz} -o LCL5.vcf.gz | |||
| opt/rtg-tools/dist/rtg-tools-3.10.1-4d58ead/rtg vcfannotate --relabel=${rename} -i ${LCL6_vcf_gz} -o LCL6.vcf.gz | |||
| /opt/rtg-tools/dist/rtg-tools-3.10.1-4d58ead/rtg vcfannotate --relabel=${rename} -i ${LCL6_vcf_gz} -o LCL6.vcf.gz | |||
| opt/rtg-tools/dist/rtg-tools-3.10.1-4d58ead/rtg vcfannotate --relabel=${rename} -i ${LCL7_vcf_gz} -o LCL7.vcf.gz | |||
| /opt/rtg-tools/dist/rtg-tools-3.10.1-4d58ead/rtg vcfannotate --relabel=${rename} -i ${LCL7_vcf_gz} -o LCL7.vcf.gz | |||
| opt/rtg-tools/dist/rtg-tools-3.10.1-4d58ead/rtg vcfannotate --relabel=${rename} -i ${LCL8_vcf_gz} -o LCL8.vcf.gz | |||
| /opt/rtg-tools/dist/rtg-tools-3.10.1-4d58ead/rtg vcfannotate --relabel=${rename} -i ${LCL8_vcf_gz} -o LCL8.vcf.gz | |||
| opt/rtg-tools/dist/rtg-tools-3.10.1-4d58ead/rtg vcfmerge --force-merge-all -o ${project}.family.vcf.gz LCL5_vcf_gz LCL6_vcf_gz LCL7_vcf_gz LCL8_vcf_gz | |||
| /opt/rtg-tools/dist/rtg-tools-3.10.1-4d58ead/rtg vcfmerge --force-merge-all -o ${project}.family.vcf.gz LCL5_vcf_gz LCL6_vcf_gz LCL7_vcf_gz LCL8_vcf_gz | |||
| gunzip ${project}.family.vcf.gz | |||
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