Mercurial > repos > jpayne > snp_pipeline

comparison 6_merge_vcfs.xml @ 55:9b2dab492d50

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"planemo upload"
author jpayne
date Thu, 05 Nov 2020 16:07:58 -0500
parents 2939020396a4
children 43d9920efbe1
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54:2939020396a4 55:9b2dab492d50
13 python $__tool_directory__/snp-wind.py ./ -p "consensus.vcf" 13 python $__tool_directory__/snp-wind.py ./ -p "consensus.vcf"
14 #for $vcf in $vcfs 14 #for $vcf in $vcfs
15 -n $vcf.element_identifier -f $vcf 15 -n $vcf.element_identifier -f $vcf
16 #end for 16 #end for
17 > ./file 17 > ./file
18 # need a comment here
18 && cat ./file 19 && cat ./file
19 && cfsan_snp_pipeline merge_vcfs ./file -v 5 20 && cfsan_snp_pipeline merge_vcfs ./file -v 5
20 ]]></command> 21 ]]></command>
21 <inputs> 22 <inputs>
22 <param type="data_collection" format="vcf" collection_type="list" name="vcfs" label="List of VCFs" /> 23 <param type="data_collection" format="vcf" collection_type="list" name="vcfs" label="List of VCFs" />