LUYAO REN
5 years ago
1 changed files with 4 additions and 4 deletions
+ 4
- 4
tasks/merge.wdl
View File
| cat ${family_name}.mendelian.txt | cut -f13 | sort | uniq -c > ${family_name}.sister.reproducibility.txt | cat ${family_name}.mendelian.txt | cut -f13 | sort | uniq -c > ${family_name}.sister.reproducibility.txt | ||||
| cat ${family_name}.mendelian.txt | cut -f11 | sort | uniq -c | grep '1:1:1' > ${family_name}.mendelian.txt | |||||
| cat ${family_name}.mendelian.txt | cut -f11 | sort | uniq -c | grep 'Ref:1:1' >> ${family_name}.mendelian.txt | |||||
| cat ${family_name}.mendelian.txt | cut -f12 | sort | uniq -c | grep 'yes' >> ${family_name}.mendelian.txt | |||||
| cat ${family_name}.mendelian.txt | cut -f11 | sort | uniq -c | grep '1:1:1' > ${family_name}.mendelian.summary.txt | |||||
| cat ${family_name}.mendelian.txt | cut -f11 | sort | uniq -c | grep 'Ref:1:1' >> ${family_name}.mendelian.summary.txt | |||||
| cat ${family_name}.mendelian.txt | cut -f12 | sort | uniq -c | grep 'yes' >> ${family_name}.mendelian.summary.txt | |||||
| >>> | >>> | ||||
| output { | output { | ||||
| File family_all_info = "${family_name}.mendelian.txt" | File family_all_info = "${family_name}.mendelian.txt" | ||||
| File sister_consistency = "${family_name}.sister.reproducibility.txt" | File sister_consistency = "${family_name}.sister.reproducibility.txt" | ||||
| File family_mendelian = "${family_name}.mendelian.txt" | |||||
| File family_mendelian = "${family_name}.mendelian.summary.txt" | |||||
| } | } | ||||
| } | } |
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