Mercurial > repos > greg > cfsan_snp_pipeline_merge_sites
comparison cfsan_snp_pipeline_merge_sites.xml @ 2:b64c03573271 draft
Uploaded
| author | greg |
|---|---|
| date | Wed, 22 Nov 2023 17:59:10 +0000 |
| parents | 1013b32b325a |
| children | bb483baa0e50 |
comparison
equal
deleted
inserted
replaced
| 1:1013b32b325a | 2:b64c03573271 |
|---|---|
| 5 </macros> | 5 </macros> |
| 6 <expand macro="requirements"/> | 6 <expand macro="requirements"/> |
| 7 <command detect_errors="exit_code"><![CDATA[ | 7 <command detect_errors="exit_code"><![CDATA[ |
| 8 python '$__tool_directory__/snp_wind.py' ./ | 8 python '$__tool_directory__/snp_wind.py' ./ |
| 9 #if str($input_type_cond.input_type) == 'single': | 9 #if str($input_type_cond.input_type) == 'single': |
| 10 -n '$input_vcf.element_identifier' | 10 -n '$input_type_cond.input_vcf.element_identifier' |
| 11 -f '$input_vcf' | 11 -f '$input_type_cond.input_vcf' |
| 12 #else: | 12 #else: |
| 13 #for $input_vcf in $input_vcf_collection | 13 #for $input_vcf in $input_type_cond.input_vcf_collection: |
| 14 -n '$input_vcf.element_identifier' | 14 -n '$input_vcf.element_identifier' |
| 15 -f '$input_vcf' | 15 -f '$input_vcf' |
| 16 #end for | 16 #end for |
| 17 #end if | 17 #end if |
| 18 -p 'var.fit.vcf' > ./file | 18 -p 'var.fit.vcf' > ./file |